Slicer Wiki - User contributions [en]

https://www.slicer.org/w/api.php?action=feedcontributions&feedformat=atom&user=Tkapur Slicer Wiki - User contributions [en] 2026-04-04T07:54:35Z User contributions MediaWiki 1.33.0 https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=63460 Main Page/SlicerCommunity 2020-10-26T00:47:30Z

<p>Tkapur: Updated google scholar citations</p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2020|2020]] :: [[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2000]]</big><br /> ----</includeonly><br /> <noinclude><br /> =3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: (numbers below updated on May 22, 2020)<br /> <br /> *[https://download.slicer.org/download-stats/ 747,153+ downloads] in the last 9 years (154,000+ in last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= over 11,400+ literature search results on Google Scholar]<br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 6,130+ '''cancer''' ] <br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 3,360+ '''brain''']<br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,190+ '''lung''']<br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,580+ '''breast''']<br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,470+ '''prostate''']<br /> <br /> <br /> *[https://na-mic.github.io/ProjectWeek/ 33+ events in open source hackathon series] continuously running since 2005 with 2668 total participants<br /> *[https://discourse.slicer.org/ Slicer Forum] with 3,533 subscribers has approximately 250 posts every week<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database]).<br /> <noinclude><br /> <br /> *[[Main_Page/SlicerCommunity/2020|2020]]<br /> *[[Main_Page/SlicerCommunity/2019|2019]]<br /> *[[Main_Page/SlicerCommunity/2018|2018]]<br /> *[[Main_Page/SlicerCommunity/2017|2017]]<br /> *[[Main_Page/SlicerCommunity/2016|2016]]<br /> *[[Main_Page/SlicerCommunity/2015|2015]]<br /> *[[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> *[[Main_Page/SlicerCommunity/2005-2010|2010-2000]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude><br /> <br /> We monitor PubMed and related databases to update these lists, but if you know of other research related to the Slicer community that should be included here please email: marianna (at) bwh.harvard.edu.</div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=63459 Main Page/SlicerCommunity 2020-10-26T00:46:34Z

<p>Tkapur: updated downloads</p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2020|2020]] :: [[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2000]]</big><br /> ----</includeonly><br /> <noinclude><br /> =3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: (numbers below updated on May 22, 2020)<br /> <br /> *[https://download.slicer.org/download-stats/ 747,153+ downloads] in the last 9 years (154,000+ in last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= over 10,300+ literature search results on Google Scholar]<br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 6,130+ '''cancer''' ] <br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 3,360+ '''brain''']<br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,190+ '''lung''']<br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,580+ '''breast''']<br /> **[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,470+ '''prostate''']<br /> <br /> <br /> *[https://na-mic.github.io/ProjectWeek/ 33+ events in open source hackathon series] continuously running since 2005 with 2668 total participants<br /> *[https://discourse.slicer.org/ Slicer Forum] with 3,533 subscribers has approximately 250 posts every week<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database]).<br /> <noinclude><br /> <br /> *[[Main_Page/SlicerCommunity/2020|2020]]<br /> *[[Main_Page/SlicerCommunity/2019|2019]]<br /> *[[Main_Page/SlicerCommunity/2018|2018]]<br /> *[[Main_Page/SlicerCommunity/2017|2017]]<br /> *[[Main_Page/SlicerCommunity/2016|2016]]<br /> *[[Main_Page/SlicerCommunity/2015|2015]]<br /> *[[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> *[[Main_Page/SlicerCommunity/2005-2010|2010-2000]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude><br /> <br /> We monitor PubMed and related databases to update these lists, but if you know of other research related to the Slicer community that should be included here please email: marianna (at) bwh.harvard.edu.</div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=61508 Main Page/SlicerCommunity 2019-10-28T16:00:45Z

<p>Tkapur: updated # project week participants</p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: (numbers below updated on April 22, 2019)<br /> *[https://download.slicer.org/download-stats/ 575,000+ downloads] in the last 8 years (145,000+ in last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= over 9,000+ literature search results on Google Scholar] <br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 5200+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1250+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,900+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,700+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,300+ breast])<br /> *[https://na-mic.github.io/ProjectWeek/ 32+ events in open source hackathon series] continuously running since 2005 with 2537 total participants<br /> * [https://discourse.slicer.org/ Slicer Forum] with 2,878 subscribers has approximately 200 posts every week<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database]).<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2019|2019]]<br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=61506 Main Page/SlicerCommunity 2019-10-25T14:27:47Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: (numbers below updated on April 22, 2019)<br /> *[https://download.slicer.org/download-stats/ 575,000+ downloads] in the last 8 years (145,000+ in last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= over 9,000+ literature search results on Google Scholar] <br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 5200+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1250+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,900+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,700+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,300+ breast])<br /> *[https://na-mic.github.io/ProjectWeek/ 32+ events in open source hackathon series] continuously running since 2005 with over 2,400 total participants<br /> * [https://discourse.slicer.org/ Slicer Forum] with other 2,475 subscribers has over 200 posts every week<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database]).<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2019|2019]]<br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=61064 Main Page/SlicerCommunity 2019-04-23T15:59:16Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: (numbers below updated on April 22, 2019)<br /> *[https://download.slicer.org/download-stats/ 500,000+ downloads] in the last 8 years (134,000+ in last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= over 8,100+ literature search results on Google Scholar] <br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4600+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1100+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,600+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,500+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,100+ breast])<br /> *[https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database]).<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2019|2019]]<br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=61063 Main Page/SlicerCommunity 2019-04-23T15:58:38Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: (numbers below updated on April 22, 2019)<br /> *[https://download.slicer.org/download-stats/ 423,000 downloads] in the past five years (134,000+ in last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= over 8,100+ literature search results on Google Scholar] <br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4600+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1100+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,600+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,500+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,100+ breast])<br /> *[https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database]).<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2019|2019]]<br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=61062 Main Page/SlicerCommunity 2019-04-23T15:52:47Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 500,000+ downloads] in the past eight years (120,000+ in 2018)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= over 8,100+ literature search results on Google Scholar] <br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4600+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1100+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,600+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,500+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,100+ breast])<br /> *[https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database]).<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2019|2019]]<br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=61061 Main Page/SlicerCommunity 2019-04-23T15:51:25Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 500,000+ downloads] in the past eight years (120,000+ in 2018)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= over 8,100+ literature search results on Google Scholar] <br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4600+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+ breast])<br /> *[https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database]).<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2019|2019]]<br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59588 Main Page/SlicerCommunity 2018-10-12T19:55:10Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 425,000+ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] <br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4000+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+ breast])<br /> *[https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database]).<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59586 Main Page/SlicerCommunity 2018-10-12T19:27:13Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 425,000+ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] <br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4000+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+ breast])<br /> *[https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> <br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59585 Main Page/SlicerCommunity 2018-10-12T19:26:23Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 425,000+ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] <br /> *[https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4000+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+ breast])<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> using 3D Slicer outside of the group that develops it. (Research performed by groups that are also actively developing 3D Slicer is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59584 Main Page/SlicerCommunity 2018-10-12T19:23:08Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 425,000+ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] <br /> *[https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4000+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+ breast])<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59583 Main Page/SlicerCommunity 2018-10-12T19:22:45Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 425,000+ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] <br /> *https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4000+ cancer research citations on Google Scholar] ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+ prostate]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+ brain]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+ lung]), ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+ breast])<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59582 Main Page/SlicerCommunity 2018-10-12T19:22:20Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 425,000+ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] <br /> *https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4000+ cancer research citations on Google Scholar] <br /> ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+ prostate]), <br /> ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+ brain]), <br /> ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+ lung]), <br /> ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+ breast])<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59581 Main Page/SlicerCommunity 2018-10-12T19:20:45Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 425,000+ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] (as of October, 2018)<br /> *https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 4000+ cancer research citations on Google Scholar] (as of October 2018) (prostate ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+]), brain ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+]), lung ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+]), and breast ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+])<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59580 Main Page/SlicerCommunity 2018-10-12T19:17:38Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 425,000+ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] (as of October, 2018)<br /> *https://na-mic.github.io/ProjectWeek/ 30+ events in open source hackathon series] continuously running since 2005<br /> *The research spans cancers of the prostate ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+]), brain ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+]), lung ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+]), and breast ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+]), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59579 Main Page/SlicerCommunity 2018-10-12T19:17:10Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *[https://download.slicer.org/download-stats/ 425,000+ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] (as of October, 2018)<br /> *30+ events in [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005<br /> *The research spans cancers of the prostate ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+]), brain ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+]), lung ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+]), and breast ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+]), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59578 Main Page/SlicerCommunity 2018-10-12T19:15:50Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *425,000+ [https://download.slicer.org/download-stats/ downloads] in the past seven years ( 113,000+ in the last year)<br /> *[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7,300+ citations on Google Scholar] (as of October, 2018)<br /> *30+ events in [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005<br /> *The research spans cancers of the prostate ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+]), brain ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+]), lung ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+]), and breast ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+]), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59577 Main Page/SlicerCommunity 2018-10-12T19:13:57Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *425,000+ [https://download.slicer.org/download-stats/ downloads] in the past seven years ( 113,000+ in the last year)<br /> *7,300+ citations on Google Scholar (as of October, 2018)<br /> *30+ events in [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005<br /> *The research spans cancers of the prostate ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+]), brain ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+]), lung ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+]), and breast ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+]), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59576 Main Page/SlicerCommunity 2018-10-12T19:12:43Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images that allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *425,000+ [https://download.slicer.org/download-stats/ downloads] in the past seven years ( 113,000+ in the last year)<br /> *7,300+ citations on Google Scholar (as of October, 2018)<br /> *30+ events in [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005<br /> *The research spans cancers of the prostate ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+]), brain ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+]), lung ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+]), and breast ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+]), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59575 Main Page/SlicerCommunity 2018-10-12T19:11:08Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images that allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> </noinclude><br /> <br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *425,000+ [https://download.slicer.org/download-stats/ downloads] in the past seven years ( 113,000+ in the last year)<br /> *7,300+ citations on Google Scholar (as of October, 2018)<br /> *30+ events in [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005<br /> <br /> Since the inception of the [https://imaging.cancer.gov/programs_resources/specialized_initiatives/qin/about/default.htm NCI QIN] and [https://itcr.cancer.gov/ ITCR networks], the use of 3D Slicer for quantitative cancer image analysis research has grown substantially. More than half of the 3D Slicer citations on Google Scholar use it for cancer research. The research spans cancers of the prostate ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+]), brain ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+]), lung ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+]), and breast ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+]), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> outside of our immediate collaboration community. That community is represented in the [http://www.spl.harvard.edu/publications/pages/display/?collection=11&collection=11 publication database].<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59573 Main Page/SlicerCommunity 2018-10-12T19:09:00Z

<p>Tkapur: </p> <hr /> <div><includeonly>----<br /> Go to <big>[[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]</big><br /> ----</includeonly><br /> <noinclude>=3D Slicer Enabled Research=<br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]]. <br /> </noinclude><br /> Since 1999, with support from the NIH and a worldwide open source developer community, we have developed, distributed, and supported 3D Slicer, a free and powerful software platform for analysis, integration, and visualization of medical images that allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> <br /> The community that relies on 3D Slicer is large and active: <br /> *425,000+ [https://download.slicer.org/download-stats/ downloads] in the past seven years ( 113,000+ in the last year)<br /> *7,300+ citations on Google Scholar (as of October, 2018)<br /> *30+ events in [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005<br /> <br /> Since the inception of the [https://imaging.cancer.gov/programs_resources/specialized_initiatives/qin/about/default.htm NCI QIN] and [https://itcr.cancer.gov/ ITCR networks], the use of 3D Slicer for quantitative cancer image analysis research has grown substantially. More than half of the 3D Slicer citations on Google Scholar use it for cancer research. The research spans cancers of the prostate ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1000+]), brain ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 2,320+]), lung ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1,310+]), and breast ([https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 1010+]), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following is a sample of the research performed<includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly> by the 3D Slicer community:<br /> <noinclude><br /> * [[Main_Page/SlicerCommunity/2018|2018]]<br /> * [[Main_Page/SlicerCommunity/2017|2017]]<br /> * [[Main_Page/SlicerCommunity/2016|2016]]<br /> * [[Main_Page/SlicerCommunity/2015|2015]]<br /> * [[Main_Page/SlicerCommunity/2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity/2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.<br /> </noinclude></div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59532 Main Page/SlicerCommunity 2018-10-12T18:24:27Z

<p>Tkapur: /* 3D Slicer Enabled Research */</p> <hr /> <div><br /> =3D Slicer Enabled Research=<br /> <br /> [[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]]. <br /> <br /> Since 1999, with support from the NIH and a worldwide open source developer community, we have developed, distributed, and supported 3D Slicer, a free and powerful software platform for analysis, integration, and visualization of medical images that allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> <br /> A trajectory of steadily increasing rates for [https://download.slicer.org/download-stats/ downloads] (425,000+ in the past seven years, of which 113,000+ were in the last year alone), more than 7,300 citations on Google Scholar, and an [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005, are indicators of the large and active community that relies on 3D Slicer. <br /> <br /> Since the inception of the [https://imaging.cancer.gov/programs_resources/specialized_initiatives/qin/about/default.htm NCI QIN] and [https://itcr.cancer.gov/ ITCR networks], the use of 3D Slicer for quantitative cancer image analysis research has grown substantially. More than half of the 3D Slicer citations on Google Scholar use it for cancer research. The research spans cancers of the [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= prostate] (1000+), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= brain] (2,320+), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= lung] (1,310+), and [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= breast] (1010+), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following is a sample of the research performed by the 3D Slicer community:<br /> <br /> * [[Main_Page/SlicerCommunity-2018|2018]]<br /> * [[Main_Page/SlicerCommunity-2017|2017]]<br /> * [[Main_Page/SlicerCommunity-2016|2016]]<br /> * [[Main_Page/SlicerCommunity-2015|2015]]<br /> * [[Main_Page/SlicerCommunity-2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity-2005-2010|2010-2005]]<br /> <br /> We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.</div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59524 Main Page/SlicerCommunity 2018-10-12T18:12:33Z

<p>Tkapur: /* 3D Slicer Enabled Research */</p> <hr /> <div><br /> =3D Slicer Enabled Research=<br /> <br /> [http://www.slicer.org 3D Slicer] is a free open source software package distributed under a BSD style [[Projects/slicerWeb:LicenseText|license]]. <br /> <br /> Since 1999, with support from the NIH and a worldwide open source developer community, we have developed, distributed, and supported 3D Slicer, a free and powerful software platform for analysis, integration, and visualization of medical images that allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> <br /> A trajectory of steadily increasing rates for [https://download.slicer.org/download-stats/ downloads] (425,000+ in the past seven years, of which 113,398 were in the last year alone), more than 7,300 citations on Google Scholar, and an [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005, are indicators of the large and active community that relies on 3D Slicer. <br /> <br /> Since the inception of the [https://imaging.cancer.gov/programs_resources/specialized_initiatives/qin/about/default.htm NCI QIN] and [https://itcr.cancer.gov/ ITCR networks], the use of 3D Slicer for quantitative cancer image analysis research has grown substantially. More than half of the 3D Slicer citations on Google Scholar use it for cancer research. The research spans cancers of the [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= prostate] (876), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= brain] (2,180), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= lung] (1,210), and [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= breast] (975), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following pages are a sample of the research done using 3D Slicer by the community:<br /> <br /> * [[Main_Page/SlicerCommunity-2018|2018]]<br /> * [[Main_Page/SlicerCommunity-2017|2017]]<br /> * [[Main_Page/SlicerCommunity-2016|2016]]<br /> * [[Main_Page/SlicerCommunity-2015|2015]]<br /> * [[Main_Page/SlicerCommunity-2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity-2005-2010|2010-2005]]<br /> <br /> We invite you to provide information on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.</div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59523 Main Page/SlicerCommunity 2018-10-12T18:11:54Z

<p>Tkapur: /* 3D Slicer Enabled Research */</p> <hr /> <div><br /> =3D Slicer Enabled Research=<br /> <br /> [http://www.slicer.org 3D Slicer] is a free open source software package distributed under a BSD style [[Projects/slicerWeb:LicenseText|license]]. <br /> Since 1999, with support from the NIH and a worldwide open source developer community, we have developed, distributed, and supported 3D Slicer, a free and powerful software platform for analysis, integration, and visualization of medical images that allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. <br /> A trajectory of steadily increasing rates for [https://download.slicer.org/download-stats/ downloads] (425,000+ in the past seven years, of which 113,398 were in the last year alone), more than 7,300 citations on Google Scholar, and an [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005, are indicators of the large and active community that relies on 3D Slicer. <br /> <br /> Since the inception of the [https://imaging.cancer.gov/programs_resources/specialized_initiatives/qin/about/default.htm NCI QIN] and [https://itcr.cancer.gov/ ITCR networks], the use of 3D Slicer for quantitative cancer image analysis research has grown substantially. More than half of the 3D Slicer citations on Google Scholar use it for cancer research. The research spans cancers of the [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= prostate] (876), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= brain] (2,180), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= lung] (1,210), and [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= breast] (975), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following pages are a sample of the research done using 3D Slicer by the community:<br /> <br /> * [[Main_Page/SlicerCommunity-2018|2018]]<br /> * [[Main_Page/SlicerCommunity-2017|2017]]<br /> * [[Main_Page/SlicerCommunity-2016|2016]]<br /> * [[Main_Page/SlicerCommunity-2015|2015]]<br /> * [[Main_Page/SlicerCommunity-2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity-2005-2010|2010-2005]]<br /> <br /> We invite you to provide information on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.</div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59522 Main Page/SlicerCommunity 2018-10-12T18:09:36Z

<p>Tkapur: /* 3D Slicer Enabled Research */</p> <hr /> <div><br /> =3D Slicer Enabled Research=<br /> <br /> [http://www.slicer.org 3D Slicer] is a free open source software package distributed under a BSD style [[Projects/slicerWeb:LicenseText|license]]. Since 1999, with support from the NIH and a worldwide open source developer community, we have developed, distributed, and supported 3D Slicer, a free and powerful software platform for analysis, integration, and visualization of medical images that allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. A trajectory of steadily increasing rates for [https://download.slicer.org/download-stats/ downloads] (425,000+ in the past seven years, of which 113,398 were in the last year alone), more than 7,300 citations on Google Scholar, and an [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005, are indicators of the large and active community that relies on 3D Slicer. <br /> <br /> Since the inception of the NCI QIN and ITCR networks, the use of 3D Slicer for quantitative cancer image analysis research has grown substantially. More than half of the 3D Slicer citations on Google Scholar use it for cancer research. The research spans cancers of the [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= prostate] (876), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= brain] (2,180), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= lung] (1,210), and [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= breast] (975), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following pages are a sample of the research done using 3D Slicer by the community:<br /> <br /> * [[Main_Page/SlicerCommunity-2018|2018]]<br /> * [[Main_Page/SlicerCommunity-2017|2017]]<br /> * [[Main_Page/SlicerCommunity-2016|2016]]<br /> * [[Main_Page/SlicerCommunity-2015|2015]]<br /> * [[Main_Page/SlicerCommunity-2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity-2005-2010|2010-2005]]<br /> <br /> We invite you to provide information on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.</div>

Tkapur https://www.slicer.org/w/index.php?title=Main_Page/SlicerCommunity&diff=59521 Main Page/SlicerCommunity 2018-10-12T18:09:10Z

<p>Tkapur: </p> <hr /> <div><br /> =3D Slicer Enabled Research=<br /> <br /> [http://www.slicer.org 3D Slicer] is a free open source software package distributed under a BSD style [[Projects/slicerWeb:LicenseText|license]]. <br /> <br /> <br /> Since 1999, with support from the NIH and a worldwide open source developer community, we have developed, distributed, and supported 3D Slicer, a free and powerful software platform for analysis, integration, and visualization of medical images that allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research.<br /> <br /> A trajectory of steadily increasing rates for [https://download.slicer.org/download-stats/ downloads] (425,000+ in the past seven years, of which 113,398 were in the last year alone), more than 7,300 citations on Google Scholar, and an [https://na-mic.github.io/ProjectWeek/ open source hackathon series] continuously running since 2005, are indicators of the large and active community that relies on 3D Slicer. <br /> <br /> Since the inception of the NCI QIN and ITCR networks, the use of 3D Slicer for quantitative cancer image analysis research has grown substantially. More than half of the 3D Slicer citations on Google Scholar use it for cancer research. The research spans cancers of the [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= prostate] (876), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= brain] (2,180), [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= lung] (1,210), and [https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= breast] (975), and involves multimodality imaging based staging and characterization, correlation with histopathology, segmentation of tumor and critical structures for precision biopsy, surgery, and radiation therapy, and quantitative assessment of response to therapy.<br /> <br /> <br /> The following pages are a sample of the research done using 3D Slicer by the community:<br /> <br /> * [[Main_Page/SlicerCommunity-2018|2018]]<br /> * [[Main_Page/SlicerCommunity-2017|2017]]<br /> * [[Main_Page/SlicerCommunity-2016|2016]]<br /> * [[Main_Page/SlicerCommunity-2015|2015]]<br /> * [[Main_Page/SlicerCommunity-2011-2014|2014-2011]]<br /> * [[Main_Page/SlicerCommunity-2005-2010|2010-2005]]<br /> <br /> We invite you to provide information on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.</div>

Tkapur https://www.slicer.org/w/index.php?title=Slicer4:VisualBlog&diff=37459 Slicer4:VisualBlog 2014-03-11T01:35:03Z

<p>Tkapur: </p> <hr /> <div>This is the Slicer 4 visual blog. Please click [[Slicer3:VisualBlog| here]] if you are looking for the old Slicer 3 visual blog.<br /> <br /> <gallery caption="2014" widths="200px" perrow="4"><br /> Image:2014AppleVisualization.png| Multiplanar and volume rendered view of a [http://forge.abcd.harvard.edu/gf/download/frsrelease/85/2945/GrannySmith.zip CT scan of a Granny Smith apple]. In plane resolution is 0.33 mm, and 1.25 mm slice thickness.<br /> Image:Post ant R oblique clean.JPG | Render created in [http://blender.org Blender] of data segmented and exported from Slicer. [http://ivaladesign.com/ Taimur Alavi] created this from a CT scan of a friend who had broken his neck.<br /> Image:IMG 20140213 101529.jpg | 3D Print of the same broken neck model, given to the friend as a kind of "good luck charm". The friend recovered.<br /> </gallery><br /> <br /> <gallery caption="2013" widths="200px" perrow="4"><br /> Image:ShapeModelSequenceBrowsing3dOnly.gif| The [[Documentation/Nightly/Extensions/MultidimData|Multidimensional data extension]] allows creating, editing, and visualizing multidimensional data sets in 3D Slicer. Browsing, replaying 4D volumes, reviewing deforming 3D models, replaying tracked ultrasound, tool navigation data in 3D, applying time-varying transforms are now all possible.<br /> Image:UKFTractography_CC.jpg|[http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/UKFTractography UKFTractography] is a module for computing tractography of DWI images using an unscented Kalman filter. Because of its 2-tensor algorithm, it is able to model fiber crossings and capture many more fibers than a single tensor algorithm.<br /> Image:SlicerIGT-VisualBlog2013.png| Some applications of the SlicerIGT extension for image-guided and navigated medical interventions. For more information see the [http://www.slicerigt.org Slicer IGT website].<br /> Image:SPV1.png|[http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/ShapePopulationViewer ShapePopulationViewer] is an external tool that allows the user to dynamically interact with multiple surfaces at the same time : an interesting tool for shape visualisation and comparison. It now is available as a Slicer Extension.<br /> Image:SlicerRT_0.13_SubjectHierarchy_ProstateEclipseLoaded.png|[http://www.na-mic.org/Wiki/index.php/2014_Winter_Project_Week:SubjectHierarchy The Subject hierarchy module and mechanism] organizes and handles loaded data in the RT extension package, providing processing and analysis features through plugins. It aspires to be a convenient central organizing point for many of the operations that 3D Slicer and its extensions perform.<br /> Image:DownloadFile 2.jpg|[[Documentation/4.3/Modules/DataStore|The Data Store]] allows a user to easily upload and download MRB files. <br /> Image:SlicerRT ContourRepresentations.png|[[Documentation/4.3/Modules/Contours|The Contours module]] manages contours in the RT extension package.<br /> Image:MultiVolume-4.3.0-update.png| [[Documentation/4.3/Modules/MultiVolumeExplorer|MultiVolumeExplorer module]] has been updated to include the capability to plot multivolume pixel values from 2 multivolumes at the same time. This feature is particularly helpful while visualizing the results of model fits, such as those produced by the updated [[Documentation/4.3/Modules/PkModeling|PkModeling extension]].<br /> Image:MatlabBridgeLogo.png| A new extension allows to run matlab scripts without having to recompile Slicer. For more information see [[Documentation/Nightly/Extensions/MatlabBridge|'''here''']]<br /> Image:ExtensionManagerScreen Shot 2013-05-23 at 9.40.23 PM.png| Extension Manager, the slicer multiplatform Appstore is open for business and free.<br /> Image:ScreenshotLobeSegmentation.png| Semi-automatic lobe segmentation for regional lung disease analysis as part of the Chest Imaging Platform funded by NHLBI 1R01HL116931<br /> Image:CMRToolkit.png|The [http://capulet.med.utah.edu/namic/cmrslicer Cardiac MR Extension] provides tools for segmentation and analysis of heart tissue and structure for treatment and diagnosis of Atrial Fibrillation.<br /> Image:CarreraSliceBlogEntry.png| [https://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter CarreraSlice] is an interactive segmentation tool. It combines a fast implementation of the GrowCut algorithm for the 'initialization' phase with KSlice, an interactive algorithm based on Level Sets, for the 'refinement' stage.<br /> </gallery><br /> <gallery caption="2012" widths="200px" perrow="4"><br /> Image:BoxChart.png| A box plot<br /> Image:2012-09-07-FetalBrain.png| Fetal brain development. The visualization is using volume rendering and the Multivolume modules in Slicer 4. Click [[media:FetalBrainGowth.mov|'''here''']] for the full movie (~24mb). Data downloaded from [http://biomedic.doc.ic.ac.uk/brain-development/index.php?n=Main.Fetal Imperial College].<br /> Image:Screen Shot 2012-09-05 at 10.01.35 AM.png|Leveraging multi viewer layout to arrange 6 slices in the 3D viewer<br /> Image:ComplexQueryWithImage.jpg|Visualization of complex query "motor system + mass + straight gyrus" using the faceted query module<br /> Image:Screen Shot 2012-05-30 at 8.03.23 AM.png| Fibers colored by their mean orientation is now available in the Tractography Display module<br /> Image:SlicerRT-0.2_screenshot.png|[https://www.assembla.com/spaces/slicerrt/milestones/1089853-slicerrt-0-2-release SlicerRT 0.2] has been released! [https://www.assembla.com/spaces/slicerrt/ SlicerRT] is 3D Slicer with extensions for radiotherapy research, which is developed by SparKit project with the contributions from Slicer community.<br /> Image:Screen Shot 2012-04-11 at 8.07.36 AM.png|The new extension manager<br /> Image:Screen Shot 2012-04-11 at 8.11.59 AM.png|Up to date download statistics<br /> Image:Screen Shot 2012-04-05 at 11.35.08 AM.png|A combination of ROI cropping of streamlines, fiducial based seeding and labelmap seeding allows to assess the deformation of streamlines which are due to tumor based deformations.<br /> Image:2012-03-05-downloadpage.png|New download page which highlights the operating system of the downloading system.<br /> Image:2012-03-04-Welcome.png|New look for the Welcome module and the "Load/Save" toolbar<br /> Image:2012-03-04-DWI2FBT.png|Step one of the DWI to Full-brain tractography wizard<br /> Image:2012-03-04-SliceViewerControllers.png|Improved 2-stage user interface for the Slice Viewer Controllers<br /> Image:2012-03-04-DicomWidget.png|Updated Dicom Module<br /> Image:2012-03-04-CoreModuleIcons.png|Updated Icons for the Core Modules<br /> Image:2012-03-04-CompareViews.png|Updated CompareViewers and Viewer Controler Module<br /> Image:Screen Shot 2012-02-23 at 7.53.51 AM.png|MultiVolumeExplorer with support for charting. See [[Documentation/Snapshot/Modules/MultiVolumeExplorer|here]] for more information.<br /> Image:Screen Shot 2012-02-09 at 10.11.08 AM.png|[[Documentation/4.0/Modules/LabelStatistics|Label Statistics]] with charting and visualization<br /> Image:3D Slicer 4.0.1.2012-02-03 180.png|Image Quantification with Label Statistics, Charting, and Volume Rendering<br /> Image:Slicer2011-gource.png|Frame from a movie of slicer code activity in 2011. See '''[http://boggs.bwh.harvard.edu/slicer/slicer4-2011-gource.x264.mp4 the full movie here]'''. Made with [http://code.google.com/p/gource/ gource]. Inspired by a [http://vimeo.com/33989053 an ITKv4 gource movie]<br /> Image:AnEarlyChartView.png|A ChartView using QWebView and jqPlot with plots defined in MRML<br /> Image:ALaterChartView.png|A ChartView using QWebView and jqPlot with plots defined in MRML<br /> Image:ABarChartView.png|A bar chart tie MRML to a QWebView<br /> </gallery><br /> <gallery caption="2011" widths="200px" perrow="4"><br /> Image:Prostate multiparametric visualization Slicer4.png|Compareviewers<br /> Image:Slicer4_ChangeTracker_Ad.png|ChangeTracker visualization of analysis results<br /> Image:Slicer4-SceneViewGUI.jpeg|Sceneview Module<br /> Image:Selection 142.png|Dicom widget<br /> Image:3D Slicer 4.0.gamma-2011-10-20 141.png|Endoscopy module<br /> Image:VolumeRendering-CTA-2011.png|Volumerendering of a CT angiogram<br /> Image:Tumor-Volume-Rendering-PostGad-2011.png|Volumerendering of a subvolume of a post Gadolinium T1 weighted image of a GBM. Note the relation of surrounding vessels to the tumor.<br /> Image:2011-11-12-CroppingWholeBrainTractography-detail.png|Note the deformation of the corpus callosum fibers<br /> Image:2011-11-12-CroppingWholeBrainTractography.png|Using an ROI to crop streamlines from a whole brain tractography. The streamlines display color by orientation, the ellipsoids are displaying fractional anisotropy.<br /> Image:Screen Shot 2011-11-02 at 1.52.42 PM.png|Annotation module 2011-11<br /> Image:MainGUI-2011-11.png|Main Gui with pop-up slice controllers<br /> Image:DataProbe-2011-11.png|The Data Probe<br /> Image:ModelsModule-2011-11.png|Models organized in a hierarchy<br /> Image:Conventional-Widescreen-10-2011.png|New Look Oct 2011<br /> Image:QSlicerVolumeRenderingModule-DualView.png|Dual camera, dual 3D viewer<br /> Image:4.0-Main-GUI-Facelift.png|After the facelift for the GUI<br /> Image:QSlicerModelsModule.png|New models module appearance<br /> Image:SlicerWithVolumeRendering.png|Slicer4 with Volume Rendering<br /> Image:Slicer4-AnnotationGUI.jpg|Slicer4 Annotation Module<br /> Image:SlicerWithDTI.png|Glyph display on cross-sections<br /> Image:FirstCompareViewInSlicer4-2011.png| First CompareView in Slicer4 2011<br /> Image:2011-01-24-Annotation.png| Slicer 4 Annotation Module 2011-01-24<br /> Image:2011-01-24-Annotation.png| Slicer 4 Annotation Module 2011-01-24<br /> Image:LiveUltrasoundModule-Slicer4.jpg| Slicer 4 Live ultrasound module for IGT spine procedures<br /> Image:LiveUltrasoundModule-Slicer4_2.jpg| Slicer 4 Live ultrasound module for IGT prostate procedures<br /> </gallery><br /> <br /> <gallery caption="2010" widths="200px" perrow="4"><br /> Image:2010-SlicerAM QtAnnotation.png| Slicer 4 Annotation Module<br /> Image:SlicerQT-2009-12-10.png|Slicer with Qt only<br /> Image:QSlicerROIModule.png| ROI Module<br /> </gallery></div>

Tkapur https://www.slicer.org/w/index.php?title=Documentation/4.2/Extensions&diff=31901 Documentation/4.2/Extensions 2013-06-10T03:06:17Z

<p>Tkapur: /* Cat 2 */</p> <hr /> <div><noinclude>{{:{{FULLPAGENAME}}/Description}}<br /> <br /> <br /> __TOC__<br /> </noinclude>= Extensions by Category =<br /> <br /> ==Cat 1==<br /> <br /> ==Cat 2==<br /> * [[Documentation/{{documentation/version}}/Extensions/SkullStripper|SkullStripper]] (Xiaodong Tao)<br /> * [[Documentation/{{documentation/version}}/Extensions/CARMA|CARMA]] (Alan Morris)[[image:UnderConstruction.png|tumb|10px]]<br /> * [[Documentation/{{documentation/version}}/Extensions/PkModeling|PkModeling]] (Emma Zhu, Jim Miller)<br /> * [[Documentation/{{documentation/version}}/Extensions/FacetedVisualizer|FacetedVisualizer]] (Harini Veeraraghavan, Jim Miller)<br /> * [[Documentation/{{documentation/version}}/Extensions/Reporting|Reporting]] (Andrey Fedorov, Nicole Aucoin, Steve Pieper) (work in progress)<br /> ** [[Documentation/{{documentation/version}}/Extensions/LabelToDICOMSEGImport|LabelToDICOMSEGConverter]] <br /> ** [[Documentation/{{documentation/version}}/Extensions/DICOMSEGImport|DICOM SEG Import]] <br /> * [[Documentation/{{documentation/version}}/Extensions/SlicerRT|SlicerRT]] (Csaba Pinter, Andras Lasso, Kevin Wang, Steve Pieper)<br /> ** [[Documentation/{{documentation/version}}/Modules/DicomRtImport|DICOM-RT import]]<br /> ** [[Documentation/{{documentation/version}}/Modules/Contours|Contours]]<br /> ** [[Documentation/{{documentation/version}}/Modules/DoseVolumeHistogram|Dose volume histogram]]<br /> ** [[Documentation/{{documentation/version}}/Modules/DoseAccumulation|Dose accumulation]]<br /> ** [[Documentation/{{documentation/version}}/Modules/DoseComparison|Dose comparison]]<br /> ** [[Documentation/{{documentation/version}}/Modules/Isodose|Isodose line and surface display]]<br /> ** [[Documentation/{{documentation/version}}/Modules/ContourComparison|Contour comparison]]<br /> ** [[Documentation/{{documentation/version}}/Modules/ContourMorphology|Contour morphology]]<br /> ** [[Documentation/{{documentation/version}}/Modules/DeformationFieldVisualizer|Deformation field visualizer]]<br /> ** Modules from [[Documentation/{{documentation/version}}/Extensions/Plastimatch|Plastimatch]] (Greg Sharp)<br /> *** [[Documentation/{{documentation/version}}/Modules/PlmBSplineDeformableRegistration|Plastimatch Automatic deformable image registration]]<br /> *** [[Documentation/{{documentation/version}}/Modules/PlmDICOMRTImport|Plastimatch DICOM-RT import]]<br /> *** [[Documentation/{{documentation/version}}/Modules/PlmDICOMRTExport|Plastimatch DICOM-RT export]] [[image:UnderConstruction.png|tumb|10px]]<br /> *** [[Documentation/{{documentation/version}}/Modules/PlmLANDWARP|Plastimatch LANDWARP Landmark]]<br /> *** [[Documentation/{{documentation/version}}/Modules/PlmXFORMWARP|Plastimatch XFORMWARP]] [[image:UnderConstruction.png|tumb|10px]]<br /> * [[Documentation/{{documentation/version}}/Extensions/VolumeResliceDriver|VolumeResliceDriver]] (Junichi Tokuda, Laurent Chauvin)<br /> * [[Documentation/{{documentation/version}}/Extensions/iGyne|IGyne]] (Guillaume Pernelle)<br /> * [[Documentation/{{documentation/version}}/Extensions/LongitudinalPETCT|LongitudinalPETCT]] (Paul Mercea, Andrey Fedorov)<br /> * [[Documentation/{{documentation/version}}/Extensions/TubeTK|TubeTK]] (Stephen Aylaward, Jean-Christophe Fillion-Robin, Christopher Mullins, Michael Jeulin-L, Matthew McCormick)<br /> * [[Documentation/{{documentation/version}}/Extensions/UKFTractography|UKFTractography]] (Ryan Eckbo, Yogesh Rathi)<br /> * [[Documentation/{{documentation/version}}/Extensions/XNATSlicer|XNATSlicer]] (Sunil Kumar, Dan Marcus, Steve Pieper)<br /> <br /> ==Cat 3==<br /> * [[Documentation/{{documentation/version}}/Extensions/LesionSegmentation|LesionSegmentation]] (Mark Scully)<br /> **[[Documentation/{{documentation/version}}/Modules/TrainModel|LesionSegmentation->TrainModel]] (Mark Scully)<br /> **[[Documentation/{{documentation/version}}/Modules/PredictLesions|LesionSegmentation->PredictLesions]] (Mark Scully)</div>

Tkapur https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/iGyne&diff=28278 Documentation/Nightly/Extensions/iGyne 2012-09-06T14:57:12Z

<p>Tkapur: </p> <hr /> <div><br /> {{documentation/{{documentation/version}}/module-header}}<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> Author: Xiaojun Chen<br><br /> Contributors: iGyne Team (url coming)<br /> Contact: Xiaojun Chen, <email>xiaojun@bwh.harvard.edu</email><br /> Website: https://github.com/xjchen/igyne<br><br /> License: [http://www.slicer.org/pages/LicenseText Slicer license]<br /> <br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Extension Description}}<br /> iGyne is an open source software for MR-Guided Interstitial Gynecologic Brachytherapy. It enables on-time processing of the intra-operative MRI data via a DICOM connection to the scanner followed by a multi-stage registration of CAD models of the template and the obturator to the patient images. This allows the virtual placement of interstitial needles during the intervention. Software features include:<br /> <br /> *Loading of Applicator CAD models and MR images<br /> *Initial registration of CAD model of the Template to MR images<br /> *Registration Refinement<br /> *Visualization of Registration<br /> *Needle Selection and Display of Virtual Needles relative to Applicator CAD models and Tumor Segmentation<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Modules}}<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Use Cases}}<br /> [https://github.com/xjchen/igyne/tree/master/Sample%20data Sample data] and<br /> [https://github.com/xjchen/igyne/tree/master/scene%20for%20template%20and%20obturator CAD models] to use with modules.<br /> <gallery widths="200px" perrow="4"><br /> Image:IGyne 1.0-registration.png|Screenshot of Registration<br /> Image:IGyne 1.0 needle visualization.png|Screenshot of Needle Visualization<br /> Image:Igyne 1.0-Tumor and Needle Visualization.png|Screenshot of Tumor and Needle Visualization<br /> </gallery><br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Tutorials}}<br /> [[media:Igyne_Tutorial.ppt | Igyne Tutorial]] (a .PPT file with 18 pages) will guide you step-by-step through the process of loading of applicator CAD models, performing registration, selecting virtual needle and viewing the results within Slicer4. It will take about 10 minutes to finish this tutorial.<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Similar Extensions}}<br /> N/A<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|References}}<br /> * http://www.na-mic.org/Wiki/index.php/2012_Summer_Project_Week:iGyne <br /> * Xiaojun Chen, Jan Egger, Akila Viswanathan, Neha Agrawal, William Wells, Ron Kikinis, Clare Tempany, Ferenc Jolesz and Tina Kapur. "Image Processing for MR-guided Gynecologic Interstitial Brachytherapy in AMIGO", The 9th Interventional MRI Symposium. September 22-23, 2012.<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/extension-developerinfo}}<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-footer}}<br /> </div>

Tkapur https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/Igyne&diff=28277 Documentation/Nightly/Extensions/Igyne 2012-09-06T14:53:25Z

<p>Tkapur: Replaced content with ' Moved to http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/iGyne'</p> <hr /> <div><br /> Moved to http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/iGyne</div>

Tkapur https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions&diff=28276 Documentation/Nightly/Extensions 2012-09-06T14:52:48Z

<p>Tkapur: /* Cat 2 */</p> <hr /> <div><noinclude>{{:{{FULLPAGENAME}}/Description}}<br /> <br /> <br /> __TOC__<br /> </noinclude>= Extensions by Category =<br /> <br /> ==Cat 1==<br /> <br /> ==Cat 2==<br /> * [[Documentation/{{documentation/version}}/Extensions/SkullStripper|SkullStripper]] (Xiaodong Tao)<br /> * [[Documentation/{{documentation/version}}/Extensions/CARMA|CARMA]] (Alan Morris)[[image:UnderConstruction.png|tumb|10px]]<br /> * [[Documentation/{{documentation/version}}/Extensions/PkModeling|PkModeling]] (Emma Zhu, Jim Miller)<br /> * [[Documentation/{{documentation/version}}/Extensions/FacetedVisualizer|FacetedVisualizer]] (Harini Veeraraghavan, Jim Miller)<br /> * [[Documentation/{{documentation/version}}/Extensions/Reporting|Reporting]] (Andrey Fedorov, Nicole Aucoin, Steve Pieper) (work in progress)<br /> * [[Documentation/{{documentation/version}}/Extensions/SlicerRT|SlicerRT]] (Csaba Pinter, Andras Lasso, Kevin Wang, Steve Pieper)<br /> * [[Documentation/{{documentation/version}}/Extensions/VolumeResliceDriver|VolumeResliceDriver]] (Junichi Tokuda, Laurent Chauvin)<br /> * [[Documentation/{{documentation/version}}/Extensions/iGyne|IGyne]] (Xiaojun Chen and iGyne Team)<br /> <br /> ==Cat 3==<br /> * [[Documentation/{{documentation/version}}/Extensions/SpatialObjects|SpatialObjects]] (Michael Jeulin-L)<br /> * [[Documentation/{{documentation/version}}/Extensions/Plastimatch|Plastimatch]] (Greg Sharp)<br /> **[[Documentation/{{documentation/version}}/Modules/PlmBSplineDeformableRegistration|Plastimatch Automatic deformable image registration]] (Greg Sharp)<br /> **[[Documentation/{{documentation/version}}/Modules/PlmDICOMRTImport|Plastimatch DICOM-RT import]] (Greg Sharp)<br /> **[[Documentation/{{documentation/version}}/Modules/PlmDICOMRTExport|Plastimatch DICOM-RT export]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmDoseComparison|Plastimatch Dose Comparison]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmDoseVolumeHistogram|Plastimatch Dose Volume Histogram]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmLANDWARP|Plastimatch LANDWARP Landmark]] (Greg Sharp)<br /> **[[Documentation/{{documentation/version}}/Modules/PlmSyntheticImageGeneration|Plastimatch Synthetic Image Generation]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmThreshBox|Plastimatch Threshold in a box]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmXFORMWARP|Plastimatch XFORMWARP]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> * [[Documentation/{{documentation/version}}/Extensions/LesionSegmentation|LesionSegmentation]] (Mark Scully)<br /> **[[Documentation/{{documentation/version}}/Modules/TrainModel|LesionSegmentation->TrainModel]] (Mark Scully)<br /> **[[Documentation/{{documentation/version}}/Modules/PredictLesions|LesionSegmentation->PredictLesions]] (Mark Scully)</div>

Tkapur https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions&diff=28275 Documentation/Nightly/Extensions 2012-09-06T14:52:28Z

<p>Tkapur: /* Cat 2 */</p> <hr /> <div><noinclude>{{:{{FULLPAGENAME}}/Description}}<br /> <br /> <br /> __TOC__<br /> </noinclude>= Extensions by Category =<br /> <br /> ==Cat 1==<br /> <br /> ==Cat 2==<br /> * [[Documentation/{{documentation/version}}/Extensions/SkullStripper|SkullStripper]] (Xiaodong Tao)<br /> * [[Documentation/{{documentation/version}}/Extensions/CARMA|CARMA]] (Alan Morris)[[image:UnderConstruction.png|tumb|10px]]<br /> * [[Documentation/{{documentation/version}}/Extensions/PkModeling|PkModeling]] (Emma Zhu, Jim Miller)<br /> * [[Documentation/{{documentation/version}}/Extensions/FacetedVisualizer|FacetedVisualizer]] (Harini Veeraraghavan, Jim Miller)<br /> * [[Documentation/{{documentation/version}}/Extensions/Reporting|Reporting]] (Andrey Fedorov, Nicole Aucoin, Steve Pieper) (work in progress)<br /> * [[Documentation/{{documentation/version}}/Extensions/SlicerRT|SlicerRT]] (Csaba Pinter, Andras Lasso, Kevin Wang, Steve Pieper)<br /> * [[Documentation/{{documentation/version}}/Extensions/VolumeResliceDriver|VolumeResliceDriver]] (Junichi Tokuda, Laurent Chauvin)<br /> * [[Documentation/{{documentation/version}}/Extensions/IGyne|IGyne]] (Xiaojun Chen and iGyne Team)<br /> <br /> ==Cat 3==<br /> * [[Documentation/{{documentation/version}}/Extensions/SpatialObjects|SpatialObjects]] (Michael Jeulin-L)<br /> * [[Documentation/{{documentation/version}}/Extensions/Plastimatch|Plastimatch]] (Greg Sharp)<br /> **[[Documentation/{{documentation/version}}/Modules/PlmBSplineDeformableRegistration|Plastimatch Automatic deformable image registration]] (Greg Sharp)<br /> **[[Documentation/{{documentation/version}}/Modules/PlmDICOMRTImport|Plastimatch DICOM-RT import]] (Greg Sharp)<br /> **[[Documentation/{{documentation/version}}/Modules/PlmDICOMRTExport|Plastimatch DICOM-RT export]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmDoseComparison|Plastimatch Dose Comparison]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmDoseVolumeHistogram|Plastimatch Dose Volume Histogram]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmLANDWARP|Plastimatch LANDWARP Landmark]] (Greg Sharp)<br /> **[[Documentation/{{documentation/version}}/Modules/PlmSyntheticImageGeneration|Plastimatch Synthetic Image Generation]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmThreshBox|Plastimatch Threshold in a box]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> **[[Documentation/{{documentation/version}}/Modules/PlmXFORMWARP|Plastimatch XFORMWARP]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]<br /> * [[Documentation/{{documentation/version}}/Extensions/LesionSegmentation|LesionSegmentation]] (Mark Scully)<br /> **[[Documentation/{{documentation/version}}/Modules/TrainModel|LesionSegmentation->TrainModel]] (Mark Scully)<br /> **[[Documentation/{{documentation/version}}/Modules/PredictLesions|LesionSegmentation->PredictLesions]] (Mark Scully)</div>

Tkapur https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/iGyne&diff=28274 Documentation/Nightly/Extensions/iGyne 2012-09-06T14:51:47Z

<p>Tkapur: Created page with ' {{documentation/{{documentation/version}}/module-header}}   {{doc…'</p> <hr /> <div><br /> {{documentation/{{documentation/version}}/module-header}}<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> Author: Xiaojun Chen<br><br /> Contributors: Xiaojun Chen(SPL),Jan Egger(SPL),Tina Kapur(SPL,PI of this project),Akila N. Viswanathan(BWH), Steve Pieper(Isomics)<br><br /> Contact: Xiaojun Chen, <email>xiaojun@bwh.harvard.edu</email>,Tina Kapur, <email>tkapur@bwh.harvard.edu</email><br><br /> Website: https://github.com/xjchen/igyne<br><br /> License: [http://www.slicer.org/pages/LicenseText Slicer license]<br /> <br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Extension Description}}<br /> iGyne is an open source software for MR-Guided Interstitial Gynecologic Brachytherapy. It enables on-time processing of the intra-operative MRI data via a DICOM connection to the scanner followed by a multi-stage registration of CAD models of the template and the obturator to the patient images. This allows the virtual placement of interstitial needles during the intervention. Software features include:<br /> <br /> *Loading of Applicator CAD models and MR images<br /> *Initial registration of CAD model of the Template to MR images<br /> *Registration Refinement<br /> *Visualization of Registration<br /> *Needle Selection and Display of Virtual Needles relative to Applicator CAD models and Tumor Segmentation<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Modules}}<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Use Cases}}<br /> [https://github.com/xjchen/igyne/tree/master/Sample%20data Sample data] and<br /> [https://github.com/xjchen/igyne/tree/master/scene%20for%20template%20and%20obturator CAD models] to use with modules.<br /> <gallery widths="200px" perrow="4"><br /> Image:IGyne 1.0-registration.png|Screenshot of Registration<br /> Image:IGyne 1.0 needle visualization.png|Screenshot of Needle Visualization<br /> Image:Igyne 1.0-Tumor and Needle Visualization.png|Screenshot of Tumor and Needle Visualization<br /> </gallery><br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Tutorials}}<br /> [[media:Igyne_Tutorial.ppt | Igyne Tutorial]] (a .PPT file with 18 pages) will guide you step-by-step through the process of loading of applicator CAD models, performing registration, selecting virtual needle and viewing the results within Slicer4. It will take about 10 minutes to finish this tutorial.<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Similar Extensions}}<br /> N/A<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|References}}<br /> * http://www.na-mic.org/Wiki/index.php/2012_Summer_Project_Week:iGyne <br /> * Xiaojun Chen, Jan Egger, Akila Viswanathan, Neha Agrawal, William Wells, Ron Kikinis, Clare Tempany, Ferenc Jolesz and Tina Kapur. "Image Processing for MR-guided Gynecologic Interstitial Brachytherapy in AMIGO", The 9th Interventional MRI Symposium. September 22-23, 2012.<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/extension-developerinfo}}<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-footer}}<br /> </div>

Tkapur https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/Igyne&diff=28273 Documentation/Nightly/Extensions/Igyne 2012-09-06T14:41:02Z

<p>Tkapur: </p> <hr /> <div><br /> {{documentation/{{documentation/version}}/module-header}}<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> Author: Xiaojun Chen<br><br /> Contributors: Xiaojun Chen(SPL),Jan Egger(SPL),Tina Kapur(SPL,PI of this project),Akila N. Viswanathan(BWH), Steve Pieper(Isomics)<br><br /> Contact: Xiaojun Chen, <email>xiaojun@bwh.harvard.edu</email>,Tina Kapur, <email>tkapur@bwh.harvard.edu</email><br><br /> Website: https://github.com/xjchen/igyne<br><br /> License: [http://www.slicer.org/pages/LicenseText Slicer license]<br /> <br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Extension Description}}<br /> iGyne is an open source software for MR-Guided Interstitial Gynecologic Brachytherapy. It enables on-time processing of the intra-operative MRI data via a DICOM connection to the scanner followed by a multi-stage registration of CAD models of the template and the obturator to the patient images. This allows the virtual placement of interstitial needles during the intervention. Software features include:<br /> <br /> *Loading of Applicator CAD models and MR images<br /> *Initial registration of CAD model of the Template to MR images<br /> *Registration Refinement<br /> *Visualization of Registration<br /> *Needle Selection and Display of Virtual Needles relative to Applicator CAD models and Tumor Segmentation<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Modules}}<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Use Cases}}<br /> [https://github.com/xjchen/igyne/tree/master/Sample%20data Sample data] and<br /> [https://github.com/xjchen/igyne/tree/master/scene%20for%20template%20and%20obturator CAD models] to use with modules.<br /> <gallery widths="200px" perrow="4"><br /> Image:IGyne 1.0-registration.png|Screenshot of Registration<br /> Image:IGyne 1.0 needle visualization.png|Screenshot of Needle Visualization<br /> Image:Igyne 1.0-Tumor and Needle Visualization.png|Screenshot of Tumor and Needle Visualization<br /> </gallery><br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Tutorials}}<br /> [[media:Igyne_Tutorial.ppt | Igyne Tutorial]] (a .PPT file with 18 pages) will guide you step-by-step through the process of loading of applicator CAD models, performing registration, selecting virtual needle and viewing the results within Slicer4. It will take about 10 minutes to finish this tutorial.<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Similar Extensions}}<br /> N/A<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|References}}<br /> * http://www.na-mic.org/Wiki/index.php/2012_Summer_Project_Week:iGyne <br /> * Xiaojun Chen, Jan Egger, Akila Viswanathan, Neha Agrawal, William Wells, Ron Kikinis, Clare Tempany, Ferenc Jolesz and Tina Kapur. "Image Processing for MR-guided Gynecologic Interstitial Brachytherapy in AMIGO", The 9th Interventional MRI Symposium. September 22-23, 2012.<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/extension-developerinfo}}<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-footer}}<br /> </div>

Tkapur https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/Igyne&diff=28272 Documentation/Nightly/Extensions/Igyne 2012-09-06T14:39:14Z

<p>Tkapur: </p> <hr /> <div><br /> {{documentation/{{documentation/version}}/module-header}}<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> Author: Xiaojun Chen<br><br /> Contributors: Xiaojun Chen(SPL),Jan Egger(SPL),Tina Kapur(SPL,PI of this project),Akila N. Viswanathan(BWH), Steve Pieper(Isomics)<br><br /> Contact: Xiaojun Chen, <email>xiaojun@bwh.harvard.edu</email>,Tina Kapur, <email>tkapur@bwh.harvard.edu</email><br><br /> Website: https://github.com/xjchen/igyne<br><br /> License: [http://www.slicer.org/pages/LicenseText Slicer license]<br /> <br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Extension Description}}<br /> iGyne is an open source software for MR-Guided Interstitial Gynecologic Brachytherapy. It enables on-time processing of the intra-operative MRI data via a DICOM connection to the scanner followed by a multi-stage registration of CAD models of the template and the obturator to the patient images. This allows the virtual placement of interstitial needles during the intervention to assist the physician positioning decision.Software features include:<br /> <br /> *Loading of Applicator CAD models and MR images<br /> *Initial registration of CAD model of the Template to MR images<br /> *Registration Refinement<br /> *Visualization of Registration<br /> *Needle Selection and Display of Virtual Needles relative to Applicator CAD models and Tumor Segmentation<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Modules}}<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Use Cases}}<br /> [https://github.com/xjchen/igyne/tree/master/Sample%20data Sample data] and<br /> [https://github.com/xjchen/igyne/tree/master/scene%20for%20template%20and%20obturator CAD models] to use with modules.<br /> <gallery widths="200px" perrow="4"><br /> Image:IGyne 1.0-registration.png|Screenshot of Registration<br /> Image:IGyne 1.0 needle visualization.png|Screenshot of Needle Visualization<br /> Image:Igyne 1.0-Tumor and Needle Visualization.png|Screenshot of Tumor and Needle Visualization<br /> </gallery><br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Tutorials}}<br /> [[media:Igyne_Tutorial.ppt | Igyne Tutorial]] (a .PPT file with 18 pages) will guide you step-by-step through the process of loading of applicator CAD models, performing registration, selecting virtual needle and viewing the results within Slicer4. It will take about 10 minutes to finish this tutorial.<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Similar Extensions}}<br /> N/A<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|References}}<br /> * http://www.na-mic.org/Wiki/index.php/2012_Summer_Project_Week:iGyne <br /> * Xiaojun Chen, Jan Egger, Akila Viswanathan, Neha Agrawal, William Wells, Ron Kikinis, Clare Tempany, Ferenc Jolesz and Tina Kapur. "Image Processing for MR-guided Gynecologic Interstitial Brachytherapy in AMIGO", The 9th Interventional MRI Symposium. September 22-23, 2012.<br /> <br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/extension-developerinfo}}<br /> <br /> <br /> {{documentation/{{documentation/version}}/extension-footer}}<br /> </div>

Tkapur https://www.slicer.org/w/index.php?title=Modules:BRAINSFit&diff=18230 Modules:BRAINSFit 2010-11-05T01:02:26Z

<p>Tkapur: /* Authors, Collaborators & Contact */</p> <hr /> <div>[[Documentation-3.6|Return to Slicer 3.6 Documentation]]<br /> <br /> [[Announcements:Slicer3.6#Highlights|Gallery of New Features]]<br /> <br /> __NOTOC__<br /> ===Module Name===<br /> BRAINSFit<br /> <br /> {|<br /> | [[Image:Before.png|thumb|280px|Before registration]]<br /> |-<br /> | [[Image:After.png|thumb|280px|AfterRegistration]]<br /> |}<br /> <br /> == General Information ==<br /> ===Module Type & Category===<br /> <br /> Type: CLI<br /> <br /> Category: Registration<br /> <br /> <br /> <br /> ===Authors, Collaborators & Contact===<br /> <br /> Author: Hans J. Johnson, hans-johnson -at- uiowa.edu, http://www.psychiatry.uiowa.edu<br /> <br /> Contributors: Hans Johnson(1,3,4); Kent Williams(1); Gregory Harris(1), Vincent Magnotta(1,2,3); Andriy Fedorov(5), fedorov -at- bwh.harvard.edu (Slicer integration); (1=University of Iowa Department of Psychiatry, 2=University of Iowa Department of Radiology, 3=University of Iowa Department of Biomedical Engineering, 4=University of Iowa Department of Electrical and Computer Engineering, 5=Surgical Planning Lab, Harvard)<br /> <br /> ===Module Description===<br /> <br /> {| style="color:green" border="1"<br /> |Program title || BRAINSFit<br /> <br /> |-<br /> |Program version || 3.0.0<br /> <br /> |-<br /> |Program documentation-url || http://wiki.slicer.org/slicerWiki/index.php/Modules:BRAINSFit<br /> <br /> |-<br /> |}<br /> <br /> Insight/Examples/Registration/ImageRegistration8.cxx<br /> This program is the most functional example of multi-modal 3D rigid image registration provided with ITK. ImageRegistration8 is in the Examples directory, and also sec. 8.5.3 in the ITK manual. We have modified and extended this example in several ways:<br /> <br /> *defined a new ITK Transform class, based on itkScaleSkewVersor3DTransform which has 3 dimensions of scale but no skew aspect.<br /> *implemented a set of functions to convert between Versor Transforms and the general itk::AffineTransform and deferred converting from specific to more general representations to preserve transform information specificity as long as possible. Our Rigid transform is the narrowest, a Versor rotation plus separate translation.<br /> *Added a template class itkMultiModal3DMutualRegistrationHelper which is templated over the type of ITK transform generated, and the optimizer used.<br /> *Added image masks as an optional input to the Registration algorithm, limiting the volume considered during registration to voxels within the brain.<br /> *Added image mask generation as an optional input to the Registration algorithm when meaningful masks such as for whole brain are not available, allowing the fit to at least be focused on whole head tissue.<br /> *Added the ability to use one transform result, such as the Rigid transform, to initialize a more adaptive transform<br /> *Defined the command line parameters using tools from the Slicer [ 3] program, in order to conform to the Slicer3 Execution model.<br /> Added the ability to write output images in any ITK-supported scalar image format.<br /> *Extensive testing as part of the BRAINS2 application suite, determined reasonable defaults for registration algorithm parameters. http://testing.psychiatry.uiowa.edu/CDash/<br /> <br /> == Usage ==<br /> The BRAINSFit distribution contains a directory named TestData, which contains two example images. The first, test.nii.gz is a NIfTI format image volume, which is used the input for the CTest-managed regression test program. The program makexfrmedImage.cxx, included in the BRAINSFit distribution was used to generate test2.nii.gz, by scaling, rotating and translating test.nii.gz. You can see representative Sagittal slices of test.nii.gz (in this case, the fixed image, test2.nii.gz (the moving image), and the two images ’checkerboarded’ together to the right. To register test2.nii.gz to test.nii.gz, you can use the following command:<br /> <br /> BRAINSFit --fixedVolume test.nii.gz \<br /> --movingVolume test2.nii.gz \<br /> --outputVolume registered.nii.gz \<br /> --transformType Affine<br /> A representative slice of the registered results image registered.nii.gz is to the right. You can see from the Checkerboard of the Fixed and Registered images that the fit is quite good with Affine transform-based registration. The blurring of the registered images is a consequence of the initial scaling used in generating the moving image from the fixed image, compounded by the interpolation necessitated by the transform operation.<br /> <br /> You can see the differences in results if you re-run BRAINSFit using Rigid, ScaleVersor3D, or ScaleSkewVersor3D as the ----transformType parameter. In this case, the authors judged Affine the best method for registering these particular two images; in the BRAINS2 automated processing pipeline, Rigid usually works well for registering research scans.<br /> <br /> ===Quick Tour of Features and Use===<br /> <br /> This section was partially generated with a [[SEMToMediaWiki.py| python script to convert Slicer Execution Model xml files into MediaWiki compatible documentation]]<br /> <br /> {|<br /> |<br /> * <span style="color:blue">'''''Input Parameters''''' </span> <br /> ** <span style="color:green">'''Fixed Image Volume'''</span> [<span style="color:orange">--fixedVolume</span>] : The fixed image for registration by mutual information optimization.<br /> ** <span style="color:green">'''Moving Image Volume'''</span> [<span style="color:orange">--movingVolume</span>] : The moving image for registration by mutual information optimization.<br /> <br /> <br /> * <span style="color:blue">'''''Registration phases to use''''' </span> <br /> ** <span style="color:green">'''Initialize with previously generated transform'''</span> [<span style="color:orange">--initialTransform</span>] : Filename of transform used to initialize the registration. This CAN NOT be used with either CenterOfHeadLAlign, MomentsAlign, GeometryAlign, or initialTransform file.<br /> ** <span style="color:green">'''Initialize with MomentsAlign registration phase'''</span> [<span style="color:orange">--useMomentsAlign</span>] : MomentsAlign assumes that the center of mass of the images represent similar structures. Perform a MomentsAlign registration as part of the sequential registration steps. This option MUST come first, and CAN NOT be used with either CenterOfHeadLAlign, GeometryAlign, or initialTransform file. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Initialize with GeometryCenterAlign registration phase'''</span> [<span style="color:orange">--useGeometryAlign</span>] : GeometryAlign on assumes that the center of the voxel lattice of the images represent similar structures. Perform a GeometryCenterAlign registration as part of the sequential registration steps. This option MUST come first, and CAN NOT be used with either MomentsAlign, CenterOfHeadAlign, or initialTransform file. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Initialize with CenterOfHeadAlign registration phase'''</span> [<span style="color:orange">--useCenterOfHeadAlign</span>] : CenterOfHeadAlign attempts to find a hemisphere full of foreground voxels from the superior direction as an estimate of where the center of a head shape would be to drive a center of mass estimate. Perform a CenterOfHeadAlign registration as part of the sequential registration steps. This option MUST come first, and CAN NOT be used with either MomentsAlign, GeometryAlign, or initialTransform file. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include Rigid registration phase'''</span> [<span style="color:orange">--useRigid</span>] : Perform a rigid registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include ScaleVersor3D registration phase'''</span> [<span style="color:orange">--useScaleVersor3D</span>] : Perform a ScaleVersor3D registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include ScaleSkewVersor3D registration phase'''</span> [<span style="color:orange">--useScaleSkewVersor3D</span>] : Perform a ScaleSkewVersor3D registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include Affine registration phase'''</span> [<span style="color:orange">--useAffine</span>] : Perform an Affine registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include BSpline registration phase'''</span> [<span style="color:orange">--useBSpline</span>] : Perform a BSpine registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> <br /> <br /> * <span style="color:blue">'''''Output Settings (At least one output must be specified.)''''' </span> <br /> ** <span style="color:green">'''Slicer BSpline Transform'''</span> [<span style="color:orange">--bsplineTransform</span>] : (optional) Filename to which save the estimated transform. NOTE: You must set at least one output object (either a deformed image or a transform. NOTE: USE THIS ONLY IF THE FINAL TRANSFORM IS BSpline<br /> ** <span style="color:green">'''Slicer Linear Transform'''</span> [<span style="color:orange">--linearTransform</span>] : (optional) Filename to which save the estimated transform. NOTE: You must set at least one output object (either a deformed image or a transform. NOTE: USE THIS ONLY IF THE FINAL TRANSFORM IS ---NOT--- BSpline<br /> ** <span style="color:green">'''Output Transform'''</span> [<span style="color:orange">--outputTransform</span>] : (optional) Filename to which save the (optional) estimated transform. NOTE: You must select either the outputTransform or the outputVolume option.<br /> ** <span style="color:green">'''Output Image Volume'''</span> [<span style="color:orange">--outputVolume</span>] : (optional) Output image for registration. NOTE: You must select either the outputTransform or the outputVolume option.<br /> ** <span style="color:green">'''Output Image Pixel Type'''</span> [<span style="color:orange">--outputVolumePixelType</span>] : The output image Pixel Type is the scalar datatype for representation of the Output Volume. ''Default value: float''<br /> <br /> <br /> * <span style="color:blue">'''''Registration Parameters''''' </span> <br /> ** <span style="color:green">'''Transform Type'''</span> [<span style="color:orange">--transformType</span>] : Specifies a list of registration types to be used. The valid types are, Rigid, ScaleVersor3D, ScaleSkewVersor3D, Affine, and BSpline. Specifiying more than one in a comma separated list will initialize the next stage with the previous results.<br /> ** <span style="color:green">'''Number Of Iterations'''</span> [<span style="color:orange">--numberOfIterations</span>] : The maximum number of iterations to try before failing to converge. Use an explicit limit like 500 or 1000 to manage risk of divergence ''Default value: 1500''<br /> ** <span style="color:green">'''Number Of Samples'''</span> [<span style="color:orange">--numberOfSamples</span>] : The number of voxels sampled for mutual information computation. Increase this for a slower, more careful fit. You can also limit the sampling focus with ROI masks and ROIAUTO mask generation. ''Default value: 100000''<br /> ** <span style="color:green">'''Minimum Step Size'''</span> [<span style="color:orange">--minimumStepSize</span>] : Each step in the optimization takes steps at least this big. When none are possible, registration is complete. ''Default value: 0.005''<br /> ** <span style="color:green">'''Transform Scale'''</span> [<span style="color:orange">--translationScale</span>] : How much to scale up changes in position compared to unit rotational changes in radians -- decrease this to put more rotation in the search pattern. ''Default value: 1000.0''<br /> ** <span style="color:green">'''Reproportion Scale'''</span> [<span style="color:orange">--reproportionScale</span>] : ScaleVersor3D 'Scale' compensation factor. Increase this to put more rescaling in a ScaleVersor3D or ScaleSkewVersor3D search pattern. 1.0 works well with a translationScale of 1000.0 ''Default value: 1.0''<br /> ** <span style="color:green">'''Skew Scale'''</span> [<span style="color:orange">--skewScale</span>] : ScaleSkewVersor3D Skew compensation factor. Increase this to put more skew in a ScaleSkewVersor3D search pattern. 1.0 works well with a translationScale of 1000.0 ''Default value: 1.0''<br /> ** <span style="color:green">'''Number Of Grid Subdivisions'''</span> [<span style="color:orange">--splineGridSize</span>] : The number of subdivisions of the BSpline Grid to be centered on the image space. Each dimension must have at least 3 subdivisions for the BSpline to be correctly computed. ''Default value: 14,10,12''<br /> ** <span style="color:green">'''Maximum B-Spline Displacement'''</span> [<span style="color:orange">--maxBSplineDisplacement</span>] : Sets the maximum allowed displacements in image physical coordinates for BSpline control grid along each axis. A value of 0.0 indicates that the problem should be unbounded. NOTE: This only constrains the BSpline portion, and does not limit the displacement from the associated bulk transform. This can lead to a substantial reduction in computation time in the BSpline optimizer. ''Default value: 0.0''<br /> <br /> <br /> * <span style="color:blue">'''''Advanced Output Settings''''' </span> <br /> ** <span style="color:green">'''Stripped Output Transform'''</span> [<span style="color:orange">--strippedOutputTransform</span>] : File name for the rigid component of the estimated affine transform. Can be used to rigidly register the moving image to the fixed image. NOTE: This value is overwritten if either bsplineTransform or linearTransform is set.<br /> ** <span style="color:green">'''Background Fill Value'''</span> [<span style="color:orange">--backgroundFillValue</span>] : Background fill value for output image. ''Default value: 0.0''<br /> ** <span style="color:green">'''Inferior Cut Off From Center'''</span> [<span style="color:orange">--maskInferiorCutOffFromCenter</span>] : For use with --useCenterOfHeadAlign (and --maskProcessingMode ROIAUTO): the cut-off below the image centers, in millimeters, ''Default value: 1000.0''<br /> ** <span style="color:green">'''Scale Output Values'''</span> [<span style="color:orange">--scaleOutputValues</span>] : If true, and the voxel values do not fit within the minimum and maximum values of the desired outputVolumePixelType, then linearly scale the min/max output image voxel values to fit within the min/max range of the outputVolumePixelType. ''Default value: false''<br /> ** <span style="color:green">'''Interpolation Mode'''</span> [<span style="color:orange">--interpolationMode</span>] : Type of interpolation to be used when applying transform to moving volume. Options are Linear, NearestNeighbor, BSpline, or WindowedSinc ''Default value: Linear''<br /> <br /> <br /> * <span style="color:blue">'''''Control of Mask Processing''''' </span> <br /> ** <span style="color:green">'''Mask Processing Mode'''</span> [<span style="color:orange">--maskProcessingMode</span>] : What mode to use for using the masks. If ROIAUTO is choosen, then the mask is implicitly defined using a otsu forground and hole filling algorithm. The Region Of Interest mode (choose ROI) uses the masks to define what parts of the image should be used for computing the transform. ''Default value: NOMASK''<br /> ** <span style="color:green">'''Output Fixed Mask (ROIAUTO only)'''</span> [<span style="color:orange">--outputFixedVolumeROI</span>] : The ROI automatically found in fixed image.<br /> ** <span style="color:green">'''Output Moving Mask (ROIAUTO only)'''</span> [<span style="color:orange">--outputMovingVolumeROI</span>] : The ROI automatically found in moving image.<br /> ** <span style="color:green">'''Input Fixed Mask (ROI only)'''</span> [<span style="color:orange">--fixedBinaryVolume</span>] : Fixed Image binary mask volume.<br /> ** <span style="color:green">'''Input Moving Mask (ROI only)'''</span> [<span style="color:orange">--movingBinaryVolume</span>] : Moving Image binary mask volume.<br /> <br /> <br /> * <span style="color:blue">'''''Special Input Image Parameters''''' </span> <br /> ** <span style="color:green">'''Fixed Image Time Index'''</span> [<span style="color:orange">--fixedVolumeTimeIndex</span>] : The index in the time series for the 3D fixed image to fit, if 4-dimensional. ''Default value: 0''<br /> ** <span style="color:green">'''Moving Image Time Index'''</span> [<span style="color:orange">--movingVolumeTimeIndex</span>] : The index in the time series for the 3D moving image to fit, if 4-dimensional. ''Default value: 0''<br /> ** <span style="color:green">'''Median Filter Size'''</span> [<span style="color:orange">--medianFilterSize</span>] : The radius for the optional MedianImageFilter preprocessing in all 3 directions. ''Default value: 0,0,0''<br /> ** <span style="color:green">'''Histogram Match'''</span> [<span style="color:orange">--histogramMatch</span>] [<span style="color:pink">-e</span>]: Histogram Match the input images. This is suitable for images of the same modality that may have different absolute scales, but the same overall intensity profile. ''Default value: false''<br /> ** <span style="color:green">'''Number of Histogram Bins'''</span> [<span style="color:orange">--numberOfHistogramBins</span>] : the number of histogram levels ''Default value: 50''<br /> ** <span style="color:green">'''Number of Match Points'''</span> [<span style="color:orange">--numberOfMatchPoints</span>] : the number of match points ''Default value: 10''<br /> <br /> <br /> * <span style="color:blue">'''''Registration Debugging Parameters''''' </span> <br /> ** <span style="color:green">'''Caching BSpline Weights Mode'''</span> [<span style="color:orange">--useCachingOfBSplineWeightsMode</span>] : This is a 5x speed advantage at the expense of requiring much more memory. Only relevant when transformType is BSpline. ''Default value: ON''<br /> ** <span style="color:green">'''Explicit PDF Derivatives Mode'''</span> [<span style="color:orange">--useExplicitPDFDerivativesMode</span>] : Using mode AUTO means OFF for BSplineDeformableTransforms and ON for the linear transforms. The ON alternative uses more memory to sometimes do a better job. ''Default value: AUTO''<br /> ** <span style="color:green">''' ROIAuto Dilate Size'''</span> [<span style="color:orange">--ROIAutoDilateSize</span>] : This flag is only relavent when using ROIAUTO mode for initializing masks. It defines the final dilation size to capture a bit of background outside the tissue region. At setting of 10mm has been shown to help regularize a BSpline registration type so that there is some background constraints to match the edges of the head better. ''Default value: 0.0''<br /> ** <span style="color:green">'''Relaxation Factor'''</span> [<span style="color:orange">--relaxationFactor</span>] : Internal debugging parameter, and should probably never be used from the command line. This will be removed in the future. ''Default value: 0.5''<br /> ** <span style="color:green">'''Maximum Step Size'''</span> [<span style="color:orange">--maximumStepSize</span>] : Internal debugging parameter, and should probably never be used from the command line. This will be removed in the future. ''Default value: 0.2''<br /> ** <span style="color:green">'''Failure Exit Code'''</span> [<span style="color:orange">--failureExitCode</span>] : If the fit fails, exit with this status code. (It can be used to force a successfult exit status of (0) if the registration fails due to reaching the maximum number of iterations. ''Default value: -1''<br /> ** <span style="color:green">'''Write Transform On Failure'''</span> [<span style="color:orange">--writeTransformOnFailure</span>] : Flag to save the final transform even if the numberOfIterations are reached without convergence. (Intended for use when --failureExitCode 0 ) ''Default value: 0''<br /> ** <span style="color:green">'''debugNumberOfThreads'''</span> [<span style="color:orange">--debugNumberOfThreads</span>] : Explicitly specify the maximum number of threads to use. ''Default value: -1''<br /> ** <span style="color:green">'''Debug option'''</span> [<span style="color:orange">--debugLevel</span>] : Display debug messages, and produce debug intermediate results. 0=OFF, 1=Minimal, 10=Maximum debugging. ''Default value: 0''<br /> <br /> <br /> * <span style="color:blue">'''''Risky Expert-only Parameters''''' </span> <br /> ** <span style="color:green">'''Selective Permission for Transform Parameters to Vary'''</span> [<span style="color:orange">--permitParameterVariation</span>] : A bit vector to permit linear transform parameters to vary under optimization. The vector order corresponds with transform parameters, and beyond the end ones fill in as a default. For instance, you can choose to rotate only in x (pitch) with 1,0,0; this is mostly for expert use in turning on and off individual degrees of freedom in rotation, translation or scaling without multiplying the number of transform representations; this trick is probably meaningless when tried with the general affine transform.<br /> <br /> <br /> ||[[Image:BRAINSFitUI_part1.png|thumb|280px|User Interface]] [[Image:BRAINSFitUI_part2.png|thumb|280px|User Interface]]<br /> |}<br /> <br /> == Development ==<br /> <br /> ===Notes from the Developer(s)===<br /> <br /> This is a thin wrapper program around the BRAINSFitHelper class in BRAINSCommonLib. The BRAINSFitHelper class<br /> is intended to allow all the functionality of BRAINSFit to be easily incorporated into another program by including a single header file, linking against the BRAINSCommonLib library, and adding code similar to the following to your application:<br /> <pre><br /> <br /> typedef itk::BRAINSFitHelper HelperType;<br /> HelperType::Pointer myHelper=HelperType::New();<br /> myHelper->SetTransformType(localTransformType);<br /> myHelper->SetFixedVolume(extractFixedVolume);<br /> myHelper->SetMovingVolume(extractMovingVolume);<br /> myHelper->StartRegistration();<br /> currentGenericTransform=myHelper->GetCurrentGenericTransform();<br /> MovingVolumeType::ConstPointer preprocessedMovingVolume = myHelper->GetPreprocessedMovingVolume();<br /> <br /> /* Optional member functions that can also be set */<br /> myHelper->SetHistogramMatch(histogramMatch);<br /> myHelper->SetNumberOfMatchPoints(numberOfMatchPoints);<br /> myHelper->SetFixedBinaryVolume(fixedMask);<br /> myHelper->SetMovingBinaryVolume(movingMask);<br /> myHelper->SetPermitParameterVariation(permitParameterVariation);<br /> myHelper->SetNumberOfSamples(numberOfSamples);<br /> myHelper->SetNumberOfHistogramBins(numberOfHistogramBins);<br /> myHelper->SetNumberOfIterations(numberOfIterations);<br /> myHelper->SetMaximumStepLength(maximumStepSize);<br /> myHelper->SetMinimumStepLength(minimumStepSize);<br /> myHelper->SetRelaxationFactor(relaxationFactor);<br /> myHelper->SetTranslationScale(translationScale);<br /> myHelper->SetReproportionScale(reproportionScale);<br /> myHelper->SetSkewScale(skewScale);<br /> myHelper->SetUseExplicitPDFDerivativesMode(useExplicitPDFDerivativesMode);<br /> myHelper->SetUseCachingOfBSplineWeightsMode(useCachingOfBSplineWeightsMode);<br /> myHelper->SetBackgroundFillValue(backgroundFillValue);<br /> myHelper->SetInitializeTransformMode(localInitializeTransformMode);<br /> myHelper->SetMaskInferiorCutOffFromCenter(maskInferiorCutOffFromCenter);<br /> myHelper->SetCurrentGenericTransform(currentGenericTransform);<br /> myHelper->SetSplineGridSize(splineGridSize);<br /> myHelper->SetCostFunctionConvergenceFactor(costFunctionConvergenceFactor);<br /> myHelper->SetProjectedGradientTolerance(projectedGradientTolerance);<br /> myHelper->SetMaxBSplineDisplacement(maxBSplineDisplacement);<br /> myHelper->SetDisplayDeformedImage(UseDebugImageViewer);<br /> myHelper->SetPromptUserAfterDisplay(PromptAfterImageSend);<br /> myHelper->SetDebugLevel(debugLevel);<br /> if(debugLevel > 7 )<br /> {<br /> myHelper->PrintCommandLine(true,"BF");<br /> }<br /> <br /> </pre><br /> <br /> ===Dependencies===<br /> BRAINSFit depends on Slicer3 (for the SlicerExecutionModel support) and ITK.<br /> BRAINSFit depends on the BRAINSCommonLib library<br /> <br /> ===Tests===<br /> <br /> Nightly testing of the development head can be found at: http://testing.psychiatry.uiowa.edu/CDash<br /> <br /> ===Known bugs===<br /> <br /> Links to known bugs and feature requests are listed at:<br /> * http://www.nitrc.org/projects/multimodereg/<br /> <br /> ===Usability issues===<br /> <br /> Follow this [http://na-mic.org/Mantis/main_page.php link] to the Slicer3 bug tracker. Please select the '''usability issue category''' when browsing or contributing.<br /> <br /> ===Source code & documentation===<br /> <br /> Links to the module's source code:<br /> <br /> Source code:<br /> *[http://www.nitrc.org/projects/multimodereg/|Hosted by NITRC ]<br /> <br /> == More Information == <br /> <br /> ===Acknowledgment===<br /> <br /> This research was supported by funding from grants NS050568 and NS40068 from the National Institute of Neurological Disorders and Stroke and grants MH31593, MH40856, from the National Institute of Mental Health.<br /> <br /> ===References===<br /> Publications related to this module go here. Links to pdfs would be useful.</div>

Tkapur https://www.slicer.org/w/index.php?title=Modules:BRAINSFit&diff=18191 Modules:BRAINSFit 2010-10-29T18:39:06Z

<p>Tkapur: /* Quick Tour of Features and Use */</p> <hr /> <div>[[Documentation-3.6|Return to Slicer 3.6 Documentation]]<br /> <br /> [[Announcements:Slicer3.6#Highlights|Gallery of New Features]]<br /> <br /> __NOTOC__<br /> ===Module Name===<br /> BRAINSFit<br /> <br /> {|<br /> | [[Image:Before.png|thumb|280px|Before registration]]<br /> |-<br /> | [[Image:After.png|thumb|280px|AfterRegistration]]<br /> |}<br /> <br /> == General Information ==<br /> ===Module Type & Category===<br /> <br /> Type: CLI<br /> <br /> Category: Registration<br /> <br /> <br /> <br /> ===Authors, Collaborators & Contact===<br /> <br /> Author: Hans J. Johnson, hans-johnson -at- uiowa.edu, http://wwww.psychiatry.uiowa.edu<br /> <br /> Contributors: Hans Johnson(1,3,4); Kent Williams(1); Gregory Harris(1), Vincent Magnotta(1,2,3); Andriy Fedorov(5), fedorov -at- bwh.harvard.edu (Slicer integration); (1=University of Iowa Department of Psychiatry, 2=University of Iowa Department of Radiology, 3=University of Iowa Department of Biomedical Engineering, 4=University of Iowa Department of Electrical and Computer Engineering, 5=Surgical Planning Lab, Harvard) <br /> <br /> <br /> <br /> ===Module Description===<br /> <br /> {| style="color:green" border="1"<br /> |Program title || BRAINSFit<br /> <br /> |-<br /> |Program version || 3.0.0<br /> <br /> |-<br /> |Program documentation-url || http://wiki.slicer.org/slicerWiki/index.php/Modules:BRAINSFit<br /> <br /> |-<br /> |}<br /> <br /> Insight/Examples/Registration/ImageRegistration8.cxx<br /> This program is the most functional example of multi-modal 3D rigid image registration provided with ITK. ImageRegistration8 is in the Examples directory, and also sec. 8.5.3 in the ITK manual. We have modified and extended this example in several ways:<br /> <br /> *defined a new ITK Transform class, based on itkScaleSkewVersor3DTransform which has 3 dimensions of scale but no skew aspect.<br /> *implemented a set of functions to convert between Versor Transforms and the general itk::AffineTransform and deferred converting from specific to more general representations to preserve transform information specificity as long as possible. Our Rigid transform is the narrowest, a Versor rotation plus separate translation.<br /> *Added a template class itkMultiModal3DMutualRegistrationHelper which is templated over the type of ITK transform generated, and the optimizer used.<br /> *Added image masks as an optional input to the Registration algorithm, limiting the volume considered during registration to voxels within the brain.<br /> *Added image mask generation as an optional input to the Registration algorithm when meaningful masks such as for whole brain are not available, allowing the fit to at least be focused on whole head tissue.<br /> *Added the ability to use one transform result, such as the Rigid transform, to initialize a more adaptive transform<br /> *Defined the command line parameters using tools from the Slicer [ 3] program, in order to conform to the Slicer3 Execution model.<br /> Added the ability to write output images in any ITK-supported scalar image format.<br /> *Extensive testing as part of the BRAINS2 application suite, determined reasonable defaults for registration algorithm parameters. http://testing.psychiatry.uiowa.edu/CDash/<br /> <br /> == Usage ==<br /> The BRAINSFit distribution contains a directory named TestData, which contains two example images. The first, test.nii.gz is a NIfTI format image volume, which is used the input for the CTest-managed regression test program. The program makexfrmedImage.cxx, included in the BRAINSFit distribution was used to generate test2.nii.gz, by scaling, rotating and translating test.nii.gz. You can see representative Sagittal slices of test.nii.gz (in this case, the fixed image, test2.nii.gz (the moving image), and the two images ’checkerboarded’ together to the right. To register test2.nii.gz to test.nii.gz, you can use the following command:<br /> <br /> BRAINSFit --fixedVolume test.nii.gz \<br /> --movingVolume test2.nii.gz \<br /> --outputVolume registered.nii.gz \<br /> --transformType Affine<br /> A representative slice of the registered results image registered.nii.gz is to the right. You can see from the Checkerboard of the Fixed and Registered images that the fit is quite good with Affine transform-based registration. The blurring of the registered images is a consequence of the initial scaling used in generating the moving image from the fixed image, compounded by the interpolation necessitated by the transform operation.<br /> <br /> You can see the differences in results if you re-run BRAINSFit using Rigid, ScaleVersor3D, or ScaleSkewVersor3D as the ----transformType parameter. In this case, the authors judged Affine the best method for registering these particular two images; in the BRAINS2 automated processing pipeline, Rigid usually works well for registering research scans.<br /> <br /> ===Quick Tour of Features and Use===<br /> <br /> This section was partially generated with a [[SEMToMediaWiki.py| python script to convert Slicer Execution Model xml files into MediaWiki compatible documentation]]<br /> <br /> {|<br /> |<br /> * <span style="color:blue">'''''Input Parameters''''' </span> <br /> ** <span style="color:green">'''Fixed Image Volume'''</span> [<span style="color:orange">--fixedVolume</span>] : The fixed image for registration by mutual information optimization.<br /> ** <span style="color:green">'''Moving Image Volume'''</span> [<span style="color:orange">--movingVolume</span>] : The moving image for registration by mutual information optimization.<br /> <br /> <br /> * <span style="color:blue">'''''Registration phases to use''''' </span> <br /> ** <span style="color:green">'''Initialize with previously generated transform'''</span> [<span style="color:orange">--initialTransform</span>] : Filename of transform used to initialize the registration. This CAN NOT be used with either CenterOfHeadLAlign, MomentsAlign, GeometryAlign, or initialTransform file.<br /> ** <span style="color:green">'''Initialize with MomentsAlign registration phase'''</span> [<span style="color:orange">--useMomentsAlign</span>] : MomentsAlign assumes that the center of mass of the images represent similar structures. Perform a MomentsAlign registration as part of the sequential registration steps. This option MUST come first, and CAN NOT be used with either CenterOfHeadLAlign, GeometryAlign, or initialTransform file. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Initialize with GeometryCenterAlign registration phase'''</span> [<span style="color:orange">--useGeometryAlign</span>] : GeometryAlign on assumes that the center of the voxel lattice of the images represent similar structures. Perform a GeometryCenterAlign registration as part of the sequential registration steps. This option MUST come first, and CAN NOT be used with either MomentsAlign, CenterOfHeadAlign, or initialTransform file. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Initialize with CenterOfHeadAlign registration phase'''</span> [<span style="color:orange">--useCenterOfHeadAlign</span>] : CenterOfHeadAlign attempts to find a hemisphere full of foreground voxels from the superior direction as an estimate of where the center of a head shape would be to drive a center of mass estimate. Perform a CenterOfHeadAlign registration as part of the sequential registration steps. This option MUST come first, and CAN NOT be used with either MomentsAlign, GeometryAlign, or initialTransform file. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include Rigid registration phase'''</span> [<span style="color:orange">--useRigid</span>] : Perform a rigid registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include ScaleVersor3D registration phase'''</span> [<span style="color:orange">--useScaleVersor3D</span>] : Perform a ScaleVersor3D registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include ScaleSkewVersor3D registration phase'''</span> [<span style="color:orange">--useScaleSkewVersor3D</span>] : Perform a ScaleSkewVersor3D registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include Affine registration phase'''</span> [<span style="color:orange">--useAffine</span>] : Perform an Affine registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> ** <span style="color:green">'''Include BSpline registration phase'''</span> [<span style="color:orange">--useBSpline</span>] : Perform a BSpine registration as part of the sequential registration steps. This family of options superceeds the use of transformType if any of them are set. ''Default value: false''<br /> <br /> <br /> * <span style="color:blue">'''''Output Settings (At least one output must be specified.)''''' </span> <br /> ** <span style="color:green">'''Slicer BSpline Transform'''</span> [<span style="color:orange">--bsplineTransform</span>] : (optional) Filename to which save the estimated transform. NOTE: You must set at least one output object (either a deformed image or a transform. NOTE: USE THIS ONLY IF THE FINAL TRANSFORM IS BSpline<br /> ** <span style="color:green">'''Slicer Linear Transform'''</span> [<span style="color:orange">--linearTransform</span>] : (optional) Filename to which save the estimated transform. NOTE: You must set at least one output object (either a deformed image or a transform. NOTE: USE THIS ONLY IF THE FINAL TRANSFORM IS ---NOT--- BSpline<br /> ** <span style="color:green">'''Output Transform'''</span> [<span style="color:orange">--outputTransform</span>] : (optional) Filename to which save the (optional) estimated transform. NOTE: You must select either the outputTransform or the outputVolume option.<br /> ** <span style="color:green">'''Output Image Volume'''</span> [<span style="color:orange">--outputVolume</span>] : (optional) Output image for registration. NOTE: You must select either the outputTransform or the outputVolume option.<br /> ** <span style="color:green">'''Output Image Pixel Type'''</span> [<span style="color:orange">--outputVolumePixelType</span>] : The output image Pixel Type is the scalar datatype for representation of the Output Volume. ''Default value: float''<br /> <br /> <br /> * <span style="color:blue">'''''Registration Parameters''''' </span> <br /> ** <span style="color:green">'''Transform Type'''</span> [<span style="color:orange">--transformType</span>] : Specifies a list of registration types to be used. The valid types are, Rigid, ScaleVersor3D, ScaleSkewVersor3D, Affine, and BSpline. Specifiying more than one in a comma separated list will initialize the next stage with the previous results.<br /> ** <span style="color:green">'''Number Of Iterations'''</span> [<span style="color:orange">--numberOfIterations</span>] : The maximum number of iterations to try before failing to converge. Use an explicit limit like 500 or 1000 to manage risk of divergence ''Default value: 1500''<br /> ** <span style="color:green">'''Number Of Samples'''</span> [<span style="color:orange">--numberOfSamples</span>] : The number of voxels sampled for mutual information computation. Increase this for a slower, more careful fit. You can also limit the sampling focus with ROI masks and ROIAUTO mask generation. ''Default value: 100000''<br /> ** <span style="color:green">'''Minimum Step Size'''</span> [<span style="color:orange">--minimumStepSize</span>] : Each step in the optimization takes steps at least this big. When none are possible, registration is complete. ''Default value: 0.005''<br /> ** <span style="color:green">'''Transform Scale'''</span> [<span style="color:orange">--translationScale</span>] : How much to scale up changes in position compared to unit rotational changes in radians -- decrease this to put more rotation in the search pattern. ''Default value: 1000.0''<br /> ** <span style="color:green">'''Reproportion Scale'''</span> [<span style="color:orange">--reproportionScale</span>] : ScaleVersor3D 'Scale' compensation factor. Increase this to put more rescaling in a ScaleVersor3D or ScaleSkewVersor3D search pattern. 1.0 works well with a translationScale of 1000.0 ''Default value: 1.0''<br /> ** <span style="color:green">'''Skew Scale'''</span> [<span style="color:orange">--skewScale</span>] : ScaleSkewVersor3D Skew compensation factor. Increase this to put more skew in a ScaleSkewVersor3D search pattern. 1.0 works well with a translationScale of 1000.0 ''Default value: 1.0''<br /> ** <span style="color:green">'''Number Of Grid Subdivisions'''</span> [<span style="color:orange">--splineGridSize</span>] : The number of subdivisions of the BSpline Grid to be centered on the image space. Each dimension must have at least 3 subdivisions for the BSpline to be correctly computed. ''Default value: 14,10,12''<br /> ** <span style="color:green">'''Maximum B-Spline Displacement'''</span> [<span style="color:orange">--maxBSplineDisplacement</span>] : Sets the maximum allowed displacements in image physical coordinates for BSpline control grid along each axis. A value of 0.0 indicates that the problem should be unbounded. NOTE: This only constrains the BSpline portion, and does not limit the displacement from the associated bulk transform. This can lead to a substantial reduction in computation time in the BSpline optimizer. ''Default value: 0.0''<br /> <br /> <br /> * <span style="color:blue">'''''Advanced Output Settings''''' </span> <br /> ** <span style="color:green">'''Stripped Output Transform'''</span> [<span style="color:orange">--strippedOutputTransform</span>] : File name for the rigid component of the estimated affine transform. Can be used to rigidly register the moving image to the fixed image. NOTE: This value is overwritten if either bsplineTransform or linearTransform is set.<br /> ** <span style="color:green">'''Background Fill Value'''</span> [<span style="color:orange">--backgroundFillValue</span>] : Background fill value for output image. ''Default value: 0.0''<br /> ** <span style="color:green">'''Inferior Cut Off From Center'''</span> [<span style="color:orange">--maskInferiorCutOffFromCenter</span>] : For use with --useCenterOfHeadAlign (and --maskProcessingMode ROIAUTO): the cut-off below the image centers, in millimeters, ''Default value: 1000.0''<br /> ** <span style="color:green">'''Scale Output Values'''</span> [<span style="color:orange">--scaleOutputValues</span>] : If true, and the voxel values do not fit within the minimum and maximum values of the desired outputVolumePixelType, then linearly scale the min/max output image voxel values to fit within the min/max range of the outputVolumePixelType. ''Default value: false''<br /> ** <span style="color:green">'''Interpolation Mode'''</span> [<span style="color:orange">--interpolationMode</span>] : Type of interpolation to be used when applying transform to moving volume. Options are Linear, NearestNeighbor, BSpline, or WindowedSinc ''Default value: Linear''<br /> <br /> <br /> * <span style="color:blue">'''''Control of Mask Processing''''' </span> <br /> ** <span style="color:green">'''Mask Processing Mode'''</span> [<span style="color:orange">--maskProcessingMode</span>] : What mode to use for using the masks. If ROIAUTO is choosen, then the mask is implicitly defined using a otsu forground and hole filling algorithm. The Region Of Interest mode (choose ROI) uses the masks to define what parts of the image should be used for computing the transform. ''Default value: NOMASK''<br /> ** <span style="color:green">'''Output Fixed Mask (ROIAUTO only)'''</span> [<span style="color:orange">--outputFixedVolumeROI</span>] : The ROI automatically found in fixed image.<br /> ** <span style="color:green">'''Output Moving Mask (ROIAUTO only)'''</span> [<span style="color:orange">--outputMovingVolumeROI</span>] : The ROI automatically found in moving image.<br /> ** <span style="color:green">'''Input Fixed Mask (ROI only)'''</span> [<span style="color:orange">--fixedBinaryVolume</span>] : Fixed Image binary mask volume.<br /> ** <span style="color:green">'''Input Moving Mask (ROI only)'''</span> [<span style="color:orange">--movingBinaryVolume</span>] : Moving Image binary mask volume.<br /> <br /> <br /> * <span style="color:blue">'''''Special Input Image Parameters''''' </span> <br /> ** <span style="color:green">'''Fixed Image Time Index'''</span> [<span style="color:orange">--fixedVolumeTimeIndex</span>] : The index in the time series for the 3D fixed image to fit, if 4-dimensional. ''Default value: 0''<br /> ** <span style="color:green">'''Moving Image Time Index'''</span> [<span style="color:orange">--movingVolumeTimeIndex</span>] : The index in the time series for the 3D moving image to fit, if 4-dimensional. ''Default value: 0''<br /> ** <span style="color:green">'''Median Filter Size'''</span> [<span style="color:orange">--medianFilterSize</span>] : The radius for the optional MedianImageFilter preprocessing in all 3 directions. ''Default value: 0,0,0''<br /> ** <span style="color:green">'''Histogram Match'''</span> [<span style="color:orange">--histogramMatch</span>] [<span style="color:pink">-e</span>]: Histogram Match the input images. This is suitable for images of the same modality that may have different absolute scales, but the same overall intensity profile. ''Default value: false''<br /> ** <span style="color:green">'''Number of Histogram Bins'''</span> [<span style="color:orange">--numberOfHistogramBins</span>] : the number of histogram levels ''Default value: 50''<br /> ** <span style="color:green">'''Number of Match Points'''</span> [<span style="color:orange">--numberOfMatchPoints</span>] : the number of match points ''Default value: 10''<br /> <br /> <br /> * <span style="color:blue">'''''Registration Debugging Parameters''''' </span> <br /> ** <span style="color:green">'''Caching BSpline Weights Mode'''</span> [<span style="color:orange">--useCachingOfBSplineWeightsMode</span>] : This is a 5x speed advantage at the expense of requiring much more memory. Only relevant when transformType is BSpline. ''Default value: ON''<br /> ** <span style="color:green">'''Explicit PDF Derivatives Mode'''</span> [<span style="color:orange">--useExplicitPDFDerivativesMode</span>] : Using mode AUTO means OFF for BSplineDeformableTransforms and ON for the linear transforms. The ON alternative uses more memory to sometimes do a better job. ''Default value: AUTO''<br /> ** <span style="color:green">''' ROIAuto Dilate Size'''</span> [<span style="color:orange">--ROIAutoDilateSize</span>] : This flag is only relavent when using ROIAUTO mode for initializing masks. It defines the final dilation size to capture a bit of background outside the tissue region. At setting of 10mm has been shown to help regularize a BSpline registration type so that there is some background constraints to match the edges of the head better. ''Default value: 0.0''<br /> ** <span style="color:green">'''Relaxation Factor'''</span> [<span style="color:orange">--relaxationFactor</span>] : Internal debugging parameter, and should probably never be used from the command line. This will be removed in the future. ''Default value: 0.5''<br /> ** <span style="color:green">'''Maximum Step Size'''</span> [<span style="color:orange">--maximumStepSize</span>] : Internal debugging parameter, and should probably never be used from the command line. This will be removed in the future. ''Default value: 0.2''<br /> ** <span style="color:green">'''Failure Exit Code'''</span> [<span style="color:orange">--failureExitCode</span>] : If the fit fails, exit with this status code. (It can be used to force a successfult exit status of (0) if the registration fails due to reaching the maximum number of iterations. ''Default value: -1''<br /> ** <span style="color:green">'''Write Transform On Failure'''</span> [<span style="color:orange">--writeTransformOnFailure</span>] : Flag to save the final transform even if the numberOfIterations are reached without convergence. (Intended for use when --failureExitCode 0 ) ''Default value: 0''<br /> ** <span style="color:green">'''debugNumberOfThreads'''</span> [<span style="color:orange">--debugNumberOfThreads</span>] : Explicitly specify the maximum number of threads to use. ''Default value: -1''<br /> ** <span style="color:green">'''Debug option'''</span> [<span style="color:orange">--debugLevel</span>] : Display debug messages, and produce debug intermediate results. 0=OFF, 1=Minimal, 10=Maximum debugging. ''Default value: 0''<br /> <br /> <br /> * <span style="color:blue">'''''Risky Expert-only Parameters''''' </span> <br /> ** <span style="color:green">'''Selective Permission for Transform Parameters to Vary'''</span> [<span style="color:orange">--permitParameterVariation</span>] : A bit vector to permit linear transform parameters to vary under optimization. The vector order corresponds with transform parameters, and beyond the end ones fill in as a default. For instance, you can choose to rotate only in x (pitch) with 1,0,0; this is mostly for expert use in turning on and off individual degrees of freedom in rotation, translation or scaling without multiplying the number of transform representations; this trick is probably meaningless when tried with the general affine transform.<br /> <br /> <br /> ||[[Image:BRAINSFitUI_part1.png|thumb|280px|User Interface]] [[Image:BRAINSFitUI_part2.png|thumb|280px|User Interface]]<br /> |}<br /> <br /> == Development ==<br /> <br /> ===Notes from the Developer(s)===<br /> <br /> This is a thin wrapper program around the BRAINSFitHelper class in BRAINSCommonLib. The BRAINSFitHelper class<br /> is intended to allow all the functionality of BRAINSFit to be easily incorporated into another program by including a single header file, linking against the BRAINSCommonLib library, and adding code similar to the following to your application:<br /> <pre><br /> <br /> typedef itk::BRAINSFitHelper HelperType;<br /> HelperType::Pointer myHelper=HelperType::New();<br /> myHelper->SetTransformType(localTransformType);<br /> myHelper->SetFixedVolume(extractFixedVolume);<br /> myHelper->SetMovingVolume(extractMovingVolume);<br /> myHelper->StartRegistration();<br /> currentGenericTransform=myHelper->GetCurrentGenericTransform();<br /> MovingVolumeType::ConstPointer preprocessedMovingVolume = myHelper->GetPreprocessedMovingVolume();<br /> <br /> /* Optional member functions that can also be set */<br /> myHelper->SetHistogramMatch(histogramMatch);<br /> myHelper->SetNumberOfMatchPoints(numberOfMatchPoints);<br /> myHelper->SetFixedBinaryVolume(fixedMask);<br /> myHelper->SetMovingBinaryVolume(movingMask);<br /> myHelper->SetPermitParameterVariation(permitParameterVariation);<br /> myHelper->SetNumberOfSamples(numberOfSamples);<br /> myHelper->SetNumberOfHistogramBins(numberOfHistogramBins);<br /> myHelper->SetNumberOfIterations(numberOfIterations);<br /> myHelper->SetMaximumStepLength(maximumStepSize);<br /> myHelper->SetMinimumStepLength(minimumStepSize);<br /> myHelper->SetRelaxationFactor(relaxationFactor);<br /> myHelper->SetTranslationScale(translationScale);<br /> myHelper->SetReproportionScale(reproportionScale);<br /> myHelper->SetSkewScale(skewScale);<br /> myHelper->SetUseExplicitPDFDerivativesMode(useExplicitPDFDerivativesMode);<br /> myHelper->SetUseCachingOfBSplineWeightsMode(useCachingOfBSplineWeightsMode);<br /> myHelper->SetBackgroundFillValue(backgroundFillValue);<br /> myHelper->SetInitializeTransformMode(localInitializeTransformMode);<br /> myHelper->SetMaskInferiorCutOffFromCenter(maskInferiorCutOffFromCenter);<br /> myHelper->SetCurrentGenericTransform(currentGenericTransform);<br /> myHelper->SetSplineGridSize(splineGridSize);<br /> myHelper->SetCostFunctionConvergenceFactor(costFunctionConvergenceFactor);<br /> myHelper->SetProjectedGradientTolerance(projectedGradientTolerance);<br /> myHelper->SetMaxBSplineDisplacement(maxBSplineDisplacement);<br /> myHelper->SetDisplayDeformedImage(UseDebugImageViewer);<br /> myHelper->SetPromptUserAfterDisplay(PromptAfterImageSend);<br /> myHelper->SetDebugLevel(debugLevel);<br /> if(debugLevel > 7 )<br /> {<br /> myHelper->PrintCommandLine(true,"BF");<br /> }<br /> <br /> </pre><br /> <br /> ===Dependencies===<br /> BRAINSFit depends on Slicer3 (for the SlicerExecutionModel support) and ITK.<br /> BRAINSFit depends on the BRAINSCommonLib library<br /> <br /> ===Tests===<br /> <br /> Nightly testing of the development head can be found at: http://testing.psychiatry.uiowa.edu/CDash<br /> <br /> ===Known bugs===<br /> <br /> Links to known bugs and feature requests are listed at:<br /> * http://www.nitrc.org/projects/multimodereg/<br /> <br /> ===Usability issues===<br /> <br /> Follow this [http://na-mic.org/Mantis/main_page.php link] to the Slicer3 bug tracker. Please select the '''usability issue category''' when browsing or contributing.<br /> <br /> ===Source code & documentation===<br /> <br /> Links to the module's source code:<br /> <br /> Source code:<br /> *[http://www.nitrc.org/projects/multimodereg/|Hosted by NITRC ]<br /> <br /> == More Information == <br /> <br /> ===Acknowledgment===<br /> <br /> This research was supported by funding from grants NS050568 and NS40068 from the National Institute of Neurological Disorders and Stroke and grants MH31593, MH40856, from the National Institute of Mental Health.<br /> <br /> ===References===<br /> Publications related to this module go here. Links to pdfs would be useful.</div>

Tkapur https://www.slicer.org/w/index.php?title=Slicer3:Using3.4&diff=7786 Slicer3:Using3.4 2009-02-08T22:58:52Z

<p>Tkapur: /* Who */</p> <hr /> <div>== What ==<br /> Developer and interested users should get together to step through common usage activities to identify the punch list of issues that must be resolved for the slicer 3.4 release. This is primarily for debugging, although ideas for new features can be added to the bug tracker.<br /> <br /> == When, Where ==<br /> 1:00 - 5:00 on Tuesday Feb 24, 2009 at the 1249 Boylston 2nd floor demo room.<br /> <br /> == Use Scenarios to Review ==<br /> <br /> * Loading Data <br /> ** Local data browsing<br /> ** DICOM Loading<br /> *** directories<br /> ** Remote IO<br /> * Fiducials<br /> ** loading, saving, managing lists, assign colors<br /> * Colors<br /> ** load save LUT <br /> ** Pet lut<br /> * Viewing, Comparing Volumes<br /> * Undo/Redo<br /> * Volume Rendering<br /> ** transfer function loading saving<br /> * Label Map Editing<br /> ** island removal, removing non functional icons<br /> * Building Models<br /> * Saving and Restoring Scenes<br /> ** Cleaning of refs to things that were deleted<br /> * Registration<br /> **rigid, affine, non-rigid<br /> **what is in and what is out<br /> * Tensor Estimation<br /> * Tractography<br /> **stochastic, landmark roi<br /> * Meshing<br /> ** reading and inflated freesurfer brain<br /> * Tracking Changes<br /> **test jacobian<br /> <br /> == Who ==<br /> (sign up if you plan to attend)<br /> * Steve Pieper<br /> * Ron Kikinis<br /> * Nicole Aucoin<br /> * Mark Anderson<br /> * Haiying Liu<br /> * Tina kapur</div>

Tkapur https://www.slicer.org/w/index.php?title=Slicer-IGT&diff=4986 Slicer-IGT 2008-05-30T02:16:49Z

<p>Tkapur: /* Disclaimer */</p> <hr /> <div>=Disclaimer=<br /> Slicer and Slicer for Image-Guided Therapy (IGT) have been designed for research purposes only and have not been reviewed or approved by the Food and Drug Administration or by any<br /> other agency. YOU ACKNOWLEDGE AND AGREE THAT CLINICAL APPLICATIONS ARE NEITHER RECOMMENDED NOR ADVISED. Read the [http://wiki.na-mic.org/Wiki/index.php/Slicer License for Slicer] for details. One may use '''Slicer for Image Guided Therapy (IGT)''' in clinical studies at his/her own risk after approval from his/her institution through its own IRB certification procedure. The example clinical cases listed in this website are either from mock-up or clinical validation study approved by IRB that weighed the merit against the risk of using Slicer for IGT, which is not recommended for clinical use. For more information about the human clinical trials, visit [http://www.cancer.gov/clinicaltrials/learning/page3 NIH-NCI] web site.<br /> <br /> =People=<br /> Sandy Wells (U41 Computational Core PI)<br><br /> Nobuhiko Hata, PhD (Slicer IGT Project Director)<br><br /> Alex Golby, MD (Neurosurgery)<br><br /> Haiying Liu, MS (Senior Engineer)<br><br /> Clare Tempany, MD (Prostate Therapy)<br><br /> <br /> = Overview =<br /> This is a project page for '''Slicer for Image Guided Therapy'''. 3D Slicer (simply Slicer) is a multi-platform, free open source software (FOSS) for visualization and image computing. The project is aimed at extending Slicer for Image Guided Therapy.<br /> <br /> * Free open-source software for Image Guided Therapy research<br /> * Provides software foundation (GUI, Image I/O, 3D viewer, tracker support), and you can focus on developping your original clinical application<br /> * Available for Windows, Mac, Linux<br /> * Access to state-of-art scientific medical image processing algorithms as well as most of commercial tracking devices<br /> * [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT#Events Affiliated scientific workshops and seminars] to discuss and exchange ideas<br /> * Increasing visibility of your research in IGT community using popular software platform<br /> * Available for commercialization by concealing proprietary codes*<br /> <br /> (*) Acknowledgment needed<br /> <br /> = Slicer for Image Guided Therapy =<br /> * For clinicians<br /> ** [http://www.na-mic.org/Slicer/Download/Release '''Download Pre-compiled version of Slicer''']<br /> ** [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/For_Users Setup and tutorials]<br /> * [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/For_Developers '''Develop your IGT projects with Slicer''']<br /> * [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/Screenshots Screenshots]<br /> =Contact Information=<br /> Nobuhiko Hata leads the development of '''Slicer for IGT''' at National Center for Image Guided Therapy. For more information please email him at: ''hata at bwh.harvard.edu''<br /> <br /> =Links=<br /> # [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/Collaborators_and_Sponsors Collaborators and Sponsors]<br /> # [http://wiki.ncigt.org/index.php/U41:cc:SA_Slicer_Engineering Internal Developers Page (authorization required)]<br /> # [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/GPU-IGT GPU accelerated medical image processing for IGT]<br /> # [[Slicer-IGT/VTK-MIST|VTK-Mist integration for fast volume rendering]]<br /> <br /> =Events=<br /> * '''[http://www.na-mic.org/Wiki/index.php/2008_Summer_Project_Week June 23-27, 2008, Summer Project Week]'''<br /> * September 6-9, 2008 [http://miccai2008.rutgers.edu/ MICCAI] Workshops at MICCAI<br /> * '''[http://www.na-mic.org/Wiki/index.php/AHM_2008 January 6-11, 2008, AHM, EAB, Project Half Week]<br /> *[http://www.na-mic.org/Wiki/index.php/2007_December_Slicer_IGT_Programming December 12-14, 2007, Slicer IGT Programming Event]<br /> * [[Slicer3:Spring-2008-User-Training|Spring 2008]] (Wednesday February 20th, 9 AM to 11 AM) Slicer3 user Training Workshop at the SPL 1249 Boylston St, Boston<br /> * March 24-27 2008: [http://www.na-mic.org/Wiki/index.php/2008_Engineering_review_at_Utah 2008 Engineering review at Utah]<br /> * April 14, 2008: Full day Slicer 3 Users and Plug-in Workshop hosted by UNC-Chapel Hill faculty<br /> * '''[http://www.na-mic.org/Wiki/index.php/2008_Summer_Project_Week June 23-27, 2008, Summer Project Week]'''<br /> * September 6-9, 2008 [http://miccai2008.rutgers.edu/ MICCAI] Submitted for consideration a full day Slicer 3 Users and Plug-in Workshop<br /> * November 30 through December 5, 2008 [http://rsna2008.rsna.org/ RSNA] Proposal for a daily 2 hour 3D Slicer as DICOM viewer training Workshop submitted.</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4928 Announcements:Slicer3.2 2008-05-27T12:38:33Z

<p>Tkapur: /* Slicer 3.2 */</p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> <big> '''Slicer 3.2'''</big>, a major release of the Slicer software platform is scheduled for Thursday, May 29, 2008. The new release contains hundreds of changes to the software, and some of the highlights include:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux<br /> * New ways to display and interact with cross-sectional data<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * Based on latest releases of VTK (5.2), ITK (3.6), and CMAKE (2.6)<br /> <br /> [http://www.slicer.org/pages/Downloads Click here to download] different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker. Please note that Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority, however, some features of Slicer3 are not fully tested.<br /> <br /> <br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> <br /> <gallery caption="Slicer v3.2 - New and Improved Feature Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> Image:DataFusion.png|Result of combining affine and b-Spline registration<br /> </gallery><br /> *[[Slicer3:Loadable_Modules|Loadable Modules]]<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4927 Announcements:Slicer3.2 2008-05-27T12:38:10Z

<p>Tkapur: </p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> <big> '''Slicer 3.2'''</big>, a major release of the Slicer software platform is scheduled for Thursday, May 29, 2008. The new release contains hundreds of changes to the software, and some of the highlights include:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux<br /> * New ways to display and interact with cross-sectional data<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * Based on latest releases of VTK (5.2), ITK (3.6), and CMAKE (2.6)<br /> <br /> <big> [http://www.slicer.org/pages/Downloads Click here to download] different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker. </big> Please note that Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority, however, some features of Slicer3 are not fully tested.<br /> <br /> <br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> <br /> <gallery caption="Slicer v3.2 - New and Improved Feature Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> Image:DataFusion.png|Result of combining affine and b-Spline registration<br /> </gallery><br /> *[[Slicer3:Loadable_Modules|Loadable Modules]]<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4925 Announcements:Slicer3.2 2008-05-27T12:35:18Z

<p>Tkapur: /* Slicer 3.2 */</p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> <big> '''Slicer 3.2'''</big>, a major release of the Slicer software platform is scheduled for Thursday, May 29, 2008. The new release contains hundreds of changes to the software, and some of the highlights include:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux<br /> * New ways to display and interact with cross-sectional data<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * Based on latest releases of VTK (5.2), ITK (3.6), and CMAKE (2.6)<br /> * Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority. Nevertheless, some features of Slicer3 are not fully tested.<br /> <br /> <big> [http://www.slicer.org/pages/Downloads Click here to download] different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker </big><br /> <br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> <br /> <gallery caption="Slicer v3.2 - New and Improved Feature Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> Image:DataFusion.png|Result of combining affine and b-Spline registration<br /> </gallery><br /> *Loadable Modules<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4924 Announcements:Slicer3.2 2008-05-27T12:34:44Z

<p>Tkapur: /* Slicer 3.2 */</p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> <big> '''Slicer 3.2'''</big>, a major release of the Slicer software platform is scheduled for Thursday, May 29, 2008. The new release contains hundreds of changes to the software, and some of the highlights include:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux<br /> * New ways to display and interact with cross-sectional data<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * Based on latest releases of VTK (5.2), ITK (3.6), and CMAKE (2.6)<br /> * Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority. Nevertheless, some features of Slicer3 are not fully tested.<br /> <br /> <big> Click [http://www.slicer.org/pages/Downloads here] to download different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker </big><br /> <br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> <br /> <gallery caption="Slicer v3.2 - New and Improved Feature Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> Image:DataFusion.png|Result of combining affine and b-Spline registration<br /> </gallery><br /> *Loadable Modules<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4923 Announcements:Slicer3.2 2008-05-27T12:33:08Z

<p>Tkapur: </p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> <big> '''Slicer 3.2'''</big>, a major release of the Slicer software platform is scheduled for Thursday, May 29, 2008. The new release contains hundreds of changes to the software, and some of the highlights include:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux<br /> * New ways to display and interact with cross-sectional data<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * Based on latest releases of VTK (5.2), ITK (3.6), and CMAKE (2.6)<br /> * Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority. Nevertheless, some features of Slicer3 are not fully tested.<br /> * Click [http://www.slicer.org/pages/Downloads here] to download different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker.<br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> <br /> <gallery caption="Slicer v3.2 - New and Improved Feature Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> Image:DataFusion.png|Result of combining affine and b-Spline registration<br /> </gallery><br /> *Loadable Modules<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4920 Announcements:Slicer3.2 2008-05-27T12:30:35Z

<p>Tkapur: </p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> <big> '''Slicer 3.2'''</big>, a major release of the Slicer software platform is scheduled for Thursday, May 29, 2008.<br /> <br /> Highlights:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux are available for download<br /> * New ways to display and interact with cross-sectional data.<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * The new release contains hundreds of changes to the software and is based on recently released versions of vtk (5.2), itk (3.6), and cmake (2.6). <br /> * Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority. Nevertheless, some features of Slicer3 are not fully tested.<br /> * Click [http://www.slicer.org/pages/Downloads here] to download different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker.<br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> <br /> <gallery caption="Slicer v3.2 - New and Improved Feature Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> Image:DataFusion.png|Result of combining affine and b-Spline registration<br /> </gallery><br /> *Loadable Modules<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4917 Announcements:Slicer3.2 2008-05-27T12:29:01Z

<p>Tkapur: /* Slicer 3.2 */</p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> Preparations are underway for a major new release - <big> '''Slicer 3.2'''</big> - of the Slicer software platform. The release is scheduled for Thursday, May 29, 2008.<br /> <br /> Highlights:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux are available for download<br /> * New ways to display and interact with cross-sectional data.<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * Many more features and improvements<br /> * The new release contains hundreds of changes to the software and is based on recently released versions of vtk (5.2), itk (3.6), and cmake (2.6). <br /> * Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority. Nevertheless, some features of Slicer3 are not fully tested.<br /> * Click [http://www.slicer.org/pages/Downloads here] to download different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker.<br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> <br /> <gallery caption="Slicer v3.2 - New and Improved Feature Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> Image:DataFusion.png|Result of combining affine and b-Spline registration<br /> </gallery><br /> *Loadable Modules<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4916 Announcements:Slicer3.2 2008-05-27T12:28:33Z

<p>Tkapur: /* New and improved features */</p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> Preparations are underway for a major new release - <big> '''Slicer 3.2'''</big> - of the Slicer software platform. The release is scheduled for Thursday, May 29, 2008.<br /> <br /> Highlights:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux are available for download<br /> * New ways to display and interact with cross-sectional data.<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * Many more features and improvements<br /> * The new release contains hundreds of changes to the software and is based on recently released versions of vtk (5.2), itk (3.6), and cmake (2.6). <br /> * Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority. Nevertheless, some features of Slicer3 are not fully tested.<br /> * Click [http://www.slicer.org/pages/Downloads here] to download different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker.<br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> <br /> <gallery caption="New and Improved Feature Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> Image:DataFusion.png|Result of combining affine and b-Spline registration<br /> </gallery><br /> *Loadable Modules<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4905 Announcements:Slicer3.2 2008-05-26T14:52:32Z

<p>Tkapur: </p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> Preparations are underway for a major new release - <big> '''Slicer 3.2'''</big> - of the Slicer software platform. The release is scheduled for Thursday, May 29, 2008.<br /> <br /> Highlights:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux are available for download<br /> * New ways to display and interact with cross-sectional data.<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * Many more features and improvements<br /> * The new release contains hundreds of changes to the software and is based on recently released versions of vtk (5.2), itk (3.6), and cmake (2.6). <br /> * Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority. Nevertheless, some features of Slicer3 are not fully tested.<br /> * Click [http://www.slicer.org/pages/Downloads here] to download different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker.<br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> =New and improved features=<br /> <br /> <gallery caption="Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> </gallery><br /> *Affine and b-Spline registration<br /> *Loadable Modules<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur https://www.slicer.org/w/index.php?title=Announcements:Slicer3.2&diff=4904 Announcements:Slicer3.2 2008-05-26T14:51:56Z

<p>Tkapur: </p> <hr /> <div>=Slicer 3.2=<br /> {| border="00" cell padding="5" cellspacing="0"<br /> |-<br /> | rowspan="2"| <br /> Preparations are underway for a major new release <big> '''Slicer 3.2'''</big> of the Slicer software platform. The release is scheduled for Thursday, May 29, 2008.<br /> <br /> Highlights:<br /> <br /> * Multi-platform support: pre-compiled binaries for Windows, Mac OS X, and Linux are available for download<br /> * New ways to display and interact with cross-sectional data.<br /> * Scene snapshots allow capture of all visualization parameters of a scene<br /> * Advanced registration / data fusion capabilities<br /> * Many more features and improvements<br /> * The new release contains hundreds of changes to the software and is based on recently released versions of vtk (5.2), itk (3.6), and cmake (2.6). <br /> * Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority. Nevertheless, some features of Slicer3 are not fully tested.<br /> * Click [http://www.slicer.org/pages/Downloads here] to download different versions of Slicer3 and find pointers to the source code, mailing lists and bug tracker.<br /> | style="background: #C3D1C3" align="center"| [[Modules:VolumeRendering-Documentation|Integrated Volume Rendering]]: <br>View of the [http://www.slicer.org/pages/Special:PubDB_View?dspaceid=1266 abdominal atlas]<br>Bone and large vessels are volume rendered.<br /> |-<br /> | style="background: #ebeced"|[[Image:VolRend2.png|center|350px|Example of Volume Rendering]] <br /> |}<br /> <br /> =New and improved features=<br /> <br /> <gallery caption="Highlights" widths="150px" heights="150px" perrow="4"><br /> Image:VolRend.png|[[Modules:VolumeRendering-Documentation|Fully integrated volume rendering]] with cropping<br /> Image:ImplicitPlane.png|Implicit Slice Widget for specifying oblique views (part of the [http://www.vtk.org/Wiki/VTK_Widget_Examples VTK widget family]).<br /> Image:LightBox.png|[[Slicer3:Tools_for_Radiologists|The Lightbox]]: Tools for viewing cross-sections<br /> Image:Editor-v3-2.png|[[Modules:Editor-Documentation|Interactive Editor]] allows interactive segmentation with powerful 2D and 3D algorithms<br /> Image:IO.png|[[Documentation|IO capabilities]] include DICOM, NRRD, NIFTI, Tiff, JPG, Freesurfer and FITS<br /> Image:Line-glyph-tracts.jpg|Glyphs on tracts:<br>[[Modules:DTMRI-Documentation|New Diffusion Imaging infrastructure]] includes<br>dicom import<br>gradient editor<br>visualiztion<br /> Image:DataLoadingStartPlan.png|[[Slicer3:Remote_Data_Handling|Remote Data Handling]] allows uploads and downloads from image informatics frameworks such as BIRN, and XNAT<br /> Image:Slicer_IGTL_PartialImage.png|[http://wiki.na-mic.org/Wiki/index.php/OpenIGTLink OpenIGTLink] interfaces to devices such as scanners, trackers, and robots<br /> </gallery><br /> *Affine and b-Spline registration<br /> *Loadable Modules<br /> *EM segementer<br /> *Scenesnapshots</div>

Tkapur