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Documentation/4.10/Extensions/DTIAtlasBuilder - Revision history
2026-04-11T19:32:58Z
Revision history for this page on the wiki
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https://www.slicer.org/w/index.php?title=Documentation/4.10/Extensions/DTIAtlasBuilder&diff=62450&oldid=prev
Grundlett: Text replacement - "<email>(.*)@(.*)<\/email>" to "$1{{@}}$2"
2019-11-27T05:21:26Z
<p>Text replacement - "<email>(.*)@(.*)<\/email>" to "$1{{@}}$2"</p>
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 05:21, 27 November 2019</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Author: Adrien Kaiser<br></div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Author: Adrien Kaiser<br></div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Contact: Adrien Kaiser, <del class="diffchange diffchange-inline"><email></del>akaiser@unc.edu<del class="diffchange diffchange-inline"></email></del><br></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Contact: Adrien Kaiser, akaiser<ins class="diffchange diffchange-inline">{{</ins>@<ins class="diffchange diffchange-inline">}}</ins>unc.edu<br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Website: http://www.nitrc.org/projects/dtiatlasbuilder/<br></div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Website: http://www.nitrc.org/projects/dtiatlasbuilder/<br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>License: [http://www.apache.org/licenses/LICENSE-2.0.html Apache License, Version 2.0]</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>License: [http://www.apache.org/licenses/LICENSE-2.0.html Apache License, Version 2.0]</div></td></tr>
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Grundlett
https://www.slicer.org/w/index.php?title=Documentation/4.10/Extensions/DTIAtlasBuilder&diff=59864&oldid=prev
UpdateBot: Nightly -> 4.10
2018-10-19T00:44:17Z
<p>Nightly -> 4.10</p>
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This extension currently does not work in Slicer4 nightly build on Windows and Mac. This should be corrected soon.<br />
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{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br />
Author: Adrien Kaiser<br><br />
Contact: Adrien Kaiser, <email>akaiser@unc.edu</email><br><br />
Website: http://www.nitrc.org/projects/dtiatlasbuilder/<br><br />
License: [http://www.apache.org/licenses/LICENSE-2.0.html Apache License, Version 2.0]<br />
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===Quick Tour of Features and Use===<br />
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This tool creates an Atlas image as an average of several DTI images that will be registered. The registration will be done in two steps :<br />
- Affine Registration with BRAINSFit<br />
- Non Linear Registration with AtlasWerks<br />
A final step will apply the transformations to the original DTI images so that the final average can be computed.<br />
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The main function writes a python script that will be executed to compute the Atlas.<br />
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By running DTIAtlasBuilder, you will need to fill in informations in a Graphical User Interface, and then compute the Atlas. You can also run the tool in command line without using the GUI.<br />
Using the GUI, you will be able to save or load a dataset file or a parameter file.<br />
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{|<br />
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* <span style="color:blue">'''''Parameters'''''</span>:<br />
** <span style="color:green">'''Parameter File'''</span> [<span style="color:orange">--parameter_file</span>] [<span style="color:pink">-p</span>]: Parameter file created with this program (.txt)<br />
** <span style="color:green">'''Dataset File'''</span> [<span style="color:orange">--dataset_file</span>] [<span style="color:pink">-d</span>]: CSV file containing the dataset (.csv)<br />
** <span style="color:green">'''Configuration file'''</span> [<span style="color:orange">--configuration_file</span>] [<span style="color:pink">-c</span>]: Software configuration file (.txt)<br />
** <span style="color:green">'''Overwrite'''</span> [<span style="color:orange">--overwrite</span>]: If you want to overwrite on previous compute (default: 0)<br />
** <span style="color:green">'''No GUI'''</span> [<span style="color:orange">--nogui</span>] : If you do not need the GUI (default: 0)<br />
|[[Image:DTIAtlasBuilder_Interface.png|thumb|280px|User Interface]]<br />
|}<br />
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Image:DTIAtlasBuilder_Interface.png|Files tab<br />
Image:DTIAtlasBuilder_Affine.png|Affine Atlas tab<br />
Image:DTIAtlasBuilder_Diffeo.png|Diffeomorphic Atlas tab<br />
Image:DTIAtlasBuilder_FinalRes.png|Final Resampling tab<br />
Image:DTIAtlasBuilder_SoftConfig.png|Software Configuration tab<br />
Image:DTIAtlasBuilder_GridProc.png|Grid Processing tab<br />
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{{documentation/{{documentation/version}}/extension-section|Information for Developers}}<br />
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More information as well as the source code can found on the project webpage: http://www.nitrc.org/projects/dtiatlasbuilder/<br />
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UpdateBot