Difference between revisions of "Documentation/Nightly/Registration/RegistrationLibrary"

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Line 6: Line 6:
 
----
 
----
  
*[[Image:UnderConstruction.png|80px]]Please note this page is under construction and some cases/descriptions may be incomplete.  
+
*[[Image:UnderConstruction.png|40px]]Please note this page is under construction and some cases/descriptions may be incomplete.  
  
 
*case description, step by step instructions, screencasts: click on the thumbnail image,  
 
*case description, step by step instructions, screencasts: click on the thumbnail image,  
Line 19: Line 19:
 
! ID
 
! ID
 
! scope="col" width="400px" |Description (click on image to access case page)
 
! scope="col" width="400px" |Description (click on image to access case page)
! Structure
+
! Structure/Pathology
 
! Type of Registration
 
! Type of Registration
 
! Modality
 
! Modality
Line 30: Line 30:
 
|Align baseline MR of meningioma with follow-up.
 
|Align baseline MR of meningioma with follow-up.
 
|}
 
|}
| brain tumor
+
| brain / tumor
 
| rigid+ affine
 
| rigid+ affine
 
| MRI
 
| MRI
Line 45: Line 45:
 
| MRI
 
| MRI
 
|[http://slicer.kitware.com/midas3/download/?items=115374 '''RegLib_C02.mrb'''] <br><small>(input data only , Slicer mrb file. 19 MB) </small><br>
 
|[http://slicer.kitware.com/midas3/download/?items=115374 '''RegLib_C02.mrb'''] <br><small>(input data only , Slicer mrb file. 19 MB) </small><br>
[http://slicer.kitware.com/midas3/download/?items=115373 '''RegLib_C02_full.mrb''']<br><small>(input data + results, Slicer mrb file. 19 MB). </small>
+
[http://slicer.kitware.com/midas3/download/item/244969/RegLib_C02_full.mrb '''RegLib_C02_full.mrb''']<br><small>(input data + results, Slicer mrb file. 19 MB). </small>
 
|-
 
|-
 
| align="center" | 3
 
| align="center" | 3
Line 53: Line 53:
 
|Align DTI volume with structural reference scan (T2)
 
|Align DTI volume with structural reference scan (T2)
 
|}
 
|}
| brain tumor
+
| brain / tumor
 
| affine + nonrigid   
 
| affine + nonrigid   
 
| DTI
 
| DTI
Line 65: Line 65:
 
|Align both intra- and inter-exam MRI of a single subject.
 
|Align both intra- and inter-exam MRI of a single subject.
 
|}
 
|}
| multiple sclerosis
+
| brain / multiple sclerosis
 
| affine
 
| affine
 
| MRI
 
| MRI
 
|[http://slicer.kitware.com/midas3/download/?items=116480 '''RegLib_C04.mrb'''] <br><small>(input data only , Slicer mrb file. 19 MB) </small><br>
 
|[http://slicer.kitware.com/midas3/download/?items=116480 '''RegLib_C04.mrb'''] <br><small>(input data only , Slicer mrb file. 19 MB) </small><br>
[http://slicer.kitware.com/midas3/download/?items=116479 '''RegLib_C04_full.mrb''']<br><small>(input data + results, Slicer mrb file. 19 MB). </small>
+
[http://slicer.kitware.com/midas3/download/item/244970/RegLib_C04_full.mrb '''RegLib_C04_full.mrb''']<br><small>(input data + results, Slicer mrb file. 19 MB). </small>
 
|-
 
|-
 
| align="center" | 6
 
| align="center" | 6
Line 94: Line 94:
 
|[http://slicer.kitware.com/midas3/download/?items=116856 '''RegLib_C07.mrb'''] <br><small>(input data only , Slicer mrb file. 8 MB) </small><br>
 
|[http://slicer.kitware.com/midas3/download/?items=116856 '''RegLib_C07.mrb'''] <br><small>(input data only , Slicer mrb file. 8 MB) </small><br>
 
[http://slicer.kitware.com/midas3/download/?items=116855 '''RegLib_C07_full.mrb''']<br><small>(input data + results, Slicer mrb file. 27 MB). </small>
 
[http://slicer.kitware.com/midas3/download/?items=116855 '''RegLib_C07_full.mrb''']<br><small>(input data + results, Slicer mrb file. 27 MB). </small>
 +
|-
 +
| align="center" | 8
 +
|
 +
{|
 +
| [[Image:RegLib_C07_Thumb1.png|200px|lleft|RegLib C08: abdominal PET-CT pre/post|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C08]]
 +
|Align baseline and follow-up PET/CT pairs
 +
|}
 +
|
 +
| affine+nonrigid
 +
| PET CT
 +
|[http://slicer.kitware.com/midas3/download/?items=116856 '''RegLib_C08.mrb'''] <br><small>(input data only , Slicer mrb file. 8 MB) </small><br>
 +
[http://slicer.kitware.com/midas3/download/?items=116855 '''RegLib_C08_full.mrb''']<br><small>(input data + results, Slicer mrb file. 27 MB). </small>
 
|-
 
|-
 
| align="center" | 9
 
| align="center" | 9
Line 101: Line 113:
 
|Align fMRI with structural MRI
 
|Align fMRI with structural MRI
 
|}
 
|}
|  
+
| brain
 
| rigid+nonrigid
 
| rigid+nonrigid
 
| MRI
 
| MRI
Line 113: Line 125:
 
|Align probabilistic/group atlas with T1
 
|Align probabilistic/group atlas with T1
 
|}
 
|}
|  
+
| brain
 
| rigid+nonrigid
 
| rigid+nonrigid
 
| MRI
 
| MRI
Line 137: Line 149:
 
|Align brain PET with low-res MRI
 
|Align brain PET with low-res MRI
 
|}
 
|}
| N/A
+
| brain
 
| affine + nonrigid   
 
| affine + nonrigid   
 
| CT
 
| CT
Line 149: Line 161:
 
| AC-PC alignment of brain MRI
 
| AC-PC alignment of brain MRI
 
|}
 
|}
| N/A
+
| brain
 
| affine + nonrigid   
 
| affine + nonrigid   
 
| CT
 
| CT
Line 215: Line 227:
 
|-
 
|-
 
| align="center" | 32
 
| align="center" | 32
|  
+
|
 
{|
 
{|
 
| [[Image:RegLib_C32_Thumb4.png|200px|left|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C32]]
 
| [[Image:RegLib_C32_Thumb4.png|200px|left|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C32]]
 
| Alignment of structural reference T1 to a DTI scan
 
| Alignment of structural reference T1 to a DTI scan
 
|}
 
|}
|  
+
| brain
 
| affine + nonrigid
 
| affine + nonrigid
 
| DTI
 
| DTI
 
|[http://slicer.kitware.com/midas3/download/?items=103594 '''RegLib_C32.mrb'''] <small>(input data, Slicer mrb file. 31 MB). </small> <br>
 
|[http://slicer.kitware.com/midas3/download/?items=103594 '''RegLib_C32.mrb'''] <small>(input data, Slicer mrb file. 31 MB). </small> <br>
 
[http://slicer.kitware.com/midas3/download/?items=103593 '''RegLib_C32_full.mrb'''] <small>(input data+results, Slicer mrb file. 36 MB). </small>
 
[http://slicer.kitware.com/midas3/download/?items=103593 '''RegLib_C32_full.mrb'''] <small>(input data+results, Slicer mrb file. 36 MB). </small>
 +
|-
 +
| align="center" | 37 [[Image:UnderConstruction.png|40px]]
 +
|
 +
{|
 +
| [[Image:RegLib_C37_Thumb1.png|200px|lleft|RegLib C37: tumor resection|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C37]]
 +
| brain tumor resection
 +
|}
 +
| brain
 +
| non-rigid
 +
| MRI
 +
|[http://slicer.kitware.com/midas3/download/?items=xx '''RegLib_C37.mrb'''] <br><small>(input data only, Slicer mrb file. 12 MB) </small><br>
 +
[http://slicer.kitware.com/midas3/download/?items=xx '''RegLib_C7_full.mrb''']<br><small>(input data + results, Slicer mrb file. 36 MB). </small>
 
|-
 
|-
 
| align="center" | 38
 
| align="center" | 38
Line 236: Line 260:
 
|MRI  
 
|MRI  
 
|[http://slicer.kitware.com/midas3/download/?items=103791 '''RegLib_C38.mrb'''] <small>(input data, Slicer mrb file. 42 MB). </small> <br>
 
|[http://slicer.kitware.com/midas3/download/?items=103791 '''RegLib_C38.mrb'''] <small>(input data, Slicer mrb file. 42 MB). </small> <br>
 +
|-
 +
| align="center" | 39
 +
|
 +
{|
 +
| [[Image:RegLib_C39_Thumb1.png|200px|lleft|RegLib C39: in vitro CT of human vertebra|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C39]]
 +
| in vitro CT of human vertebra before and after structural damage
 +
|}
 +
| vertebra
 +
| rigid
 +
| CT
 +
|[http://slicer.kitware.com/midas3/download/bitstream/431015/RegLib_C39.mrb '''RegLib_C39.mrb'''] <br><small>(input data only, Slicer mrb file. 25 MB) </small><br>
 +
[http://slicer.kitware.com/midas3/download/bitstream/153889/RegLib_C39_full.mrb '''RegLib_C39_full.mrb''']<br><small>(input data + results, Slicer mrb file. 45 MB). </small>
 +
|-
 +
| align="center" | 40
 +
|
 +
{|
 +
| [[Image:RegLib_C40_Thumb1.png|200px|lleft|RegLib C40: micro CT of material sample|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C40]]
 +
| register micro-CT of wood sample to quantify/model structural changes
 +
|}
 +
| wood sample
 +
| non-rigid
 +
| micro-CT
 +
|[http://slicer.kitware.com/midas3/download/?items=119692 '''RegLib_C40.mrb'''] <br><small>(input data only, Slicer mrb file. 32 MB) </small><br>
 +
[http://slicer.kitware.com/midas3/download/?items=119691 '''RegLib_C40_full.mrb''']<br><small>(input data + results, Slicer mrb file. 100 MB). </small>
 +
|-
 +
| align="center" | 41
 +
|
 +
{|
 +
| [[Image:RegLib_C41_Thumb1.png|200px|lleft|RegLib C41: mouse brain MRI|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C41]]
 +
| Align two distinct mouse brain MRIs
 +
|}
 +
| mouse brain
 +
| non-rigid
 +
| MRI
 +
|[http://slicer.kitware.com/midas3/download/?items=119689 '''RegLib_C41.mrb'''] <br><small>(input data only, Slicer mrb file. 32 MB) </small><br>
 +
[http://slicer.kitware.com/midas3/download/?items=119688 '''RegLib_C41_full.mrb''']<br><small>(input data + results, Slicer mrb file. 100 MB). </small>
 +
|-
 +
| align="center" | 42
 +
|
 +
{|
 +
| [[Image:RegLib_C42_Thumb1.png|200px|lleft|RegLib C42: pediatric MRI|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C42]]
 +
| autism
 +
|}
 +
| brain
 +
| non-rigid
 +
| MRI
 +
|[http://slicer.kitware.com/midas3/download/?items=119557 '''RegLib_C42.mrb'''] <br><small>(input data only, Slicer mrb file. 12 MB) </small><br>
 +
[http://slicer.kitware.com/midas3/download/?items=119556 '''RegLib_C42_full.mrb''']<br><small>(input data + results, Slicer mrb file. 36 MB). </small>
 +
|-
 +
| align="center" | 44
 +
|
 +
{|
 +
| [[Image:RegLib_C44_Thumb1.png|200px|lleft|RegLib C44: pelvic MRI|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C44]]
 +
| pelvis
 +
|}
 +
| abdominal
 +
| non-rigid
 +
| MRI
 +
|[http://slicer.kitware.com/midas3/download/?items=119555 '''RegLib_C44.mrb'''] <br><small>(input data only, Slicer mrb file. 74 MB) </small><br>
 +
[http://slicer.kitware.com/midas3/download/?items=119554 '''RegLib_C44_full.mrb''']<br><small>(input data + results, Slicer mrb file. 82 MB). </small>
 +
|-
 +
| align="center" | 46
 +
|
 +
{|
 +
| [[Image:RegLib_C46_DisplacementField.gif|200px|lleft|RegLib C46: 2D cine MRI of breathing cycle|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C46]]
 +
| 2D cine MRI of breathing cycle
 +
|}
 +
| abdominal
 +
| non-rigid 2D , batch processing
 +
| MRI
 +
|[http://slicer.kitware.com/midas3/download/?items=119459 '''RegLib_C46.mrb'''] <br><small>(input data (ref + 1 slice only), Slicer mrb file. 0.6 MB) </small><br>
 +
[http://slicer.kitware.com/midas3/download/?items=119460 '''RegLib_C46_Data.zip''']<br><small>(input data + results, zip file with original DICOM + registration script. 65 MB). </small>
 
|-
 
|-
 
| align="center" | 48
 
| align="center" | 48
Line 260: Line 356:
 
|[http://slicer.kitware.com/midas3/download/?items=118347 '''RegLib_C49.mrb'''] <br><small>(input data only (incl. example fiducials) , Slicer mrb file. 50 MB) </small><br>
 
|[http://slicer.kitware.com/midas3/download/?items=118347 '''RegLib_C49.mrb'''] <br><small>(input data only (incl. example fiducials) , Slicer mrb file. 50 MB) </small><br>
 
[http://slicer.kitware.com/midas3/download/?items=118346 '''RegLib_C49_full.mrb''']<br><small>(input data + results, Slicer mrb file. 82 MB). </small>
 
[http://slicer.kitware.com/midas3/download/?items=118346 '''RegLib_C49_full.mrb''']<br><small>(input data + results, Slicer mrb file. 82 MB). </small>
 +
|-
 +
| align="center" | 50
 +
|
 +
{|
 +
| [[Image:RegLib_C50_Thumb1.png|200px|lleft|RegLib C50: Mouse CT|link=Documentation:{{documentation/version}}:Registration:RegistrationLibrary:RegLib_C50]]
 +
| mouse brain micro-CT
 +
|}
 +
| mouse brain
 +
| affine + BSpline
 +
| micro-CT
 +
|[http://slicer.kitware.com/midas3/download/?items=127956 '''RegLib_C50.mrb'''] <br><small>(input data only (incl. example fiducials) , Slicer mrb file. 50 MB) </small><br>
 +
[http://slicer.kitware.com/midas3/download/?items=127955 '''RegLib_C50_full.mrb''']<br><small>(input data + results, Slicer mrb file. 82 MB). </small>
 
|}
 
|}
 
<!--
 
<!--
 
this is commented out
 
this is commented out
 
-->
 
-->

Latest revision as of 20:29, 14 May 2018

Home < Documentation < Nightly < Registration < RegistrationLibrary


For the latest Slicer documentation, visit the read-the-docs.



  • UnderConstruction.pngPlease note this page is under construction and some cases/descriptions may be incomplete.
  • case description, step by step instructions, screencasts: click on the thumbnail image,
  • download image data: click on download link, which fetches .mrb file from MIDAS
  • main module documentation: click on the link in the toolbox column.
  • sort the table by a category: click on the sort icon in the column header



ID Description (click on image to access case page) Structure/Pathology Type of Registration Modality Download
1
RegLib C01: MR Meningioma Align baseline MR of meningioma with follow-up.
brain / tumor rigid+ affine MRI RegLib_C01.mrb
(input data only , Slicer mrb file. 13 MB)
2
RegLib C02: MR Meningioma Align MRI FLAIR with lesion segmentation to T1
multiple sclerosis affine MRI RegLib_C02.mrb
(input data only , Slicer mrb file. 19 MB)

RegLib_C02_full.mrb
(input data + results, Slicer mrb file. 19 MB).

3
RegLib C03: DTI alignment Align DTI volume with structural reference scan (T2)
brain / tumor affine + nonrigid DTI RegLib_C03.mrb
(input data only , Slicer mrb file. 50 MB)

RegLib_C03_full.mrb
(input data + results, Slicer mrb file. 108 MB).

4
RegLib C04: MS longitudinal+multispectral Align both intra- and inter-exam MRI of a single subject.
brain / multiple sclerosis affine MRI RegLib_C04.mrb
(input data only , Slicer mrb file. 19 MB)

RegLib_C04_full.mrb
(input data + results, Slicer mrb file. 19 MB).

6
RegLib C06: Breast MRI pre/post Align pre- and post-Rx breast MRI
breast cancer affine+nonrigid MRI RegLib_C06.mrb
(input data only , Slicer mrb file. 40 MB)

RegLib_C06_full.mrb
(input data + results, Slicer mrb file. 65 MB).

7
RegLib C07: Prostate MRI pre/post Align baseline and follow-up prostate MRI
prostate cancer affine+nonrigid MRI RegLib_C07.mrb
(input data only , Slicer mrb file. 8 MB)

RegLib_C07_full.mrb
(input data + results, Slicer mrb file. 27 MB).

8
RegLib C08: abdominal PET-CT pre/post Align baseline and follow-up PET/CT pairs
affine+nonrigid PET CT RegLib_C08.mrb
(input data only , Slicer mrb file. 8 MB)

RegLib_C08_full.mrb
(input data + results, Slicer mrb file. 27 MB).

9
RegLib C09: fMRI to T1 Align fMRI with structural MRI
brain rigid+nonrigid MRI RegLib_C09.mrb
(input data only , Slicer mrb file. 40 MB)

RegLib_C09_full.mrb
(input data + results, Slicer mrb file. 182 MB).

10
RegLib C10: Atlas to T1 Align probabilistic/group atlas with T1
brain rigid+nonrigid MRI RegLib_C10.mrb
(input data only , Slicer mrb file. 12 MB)

RegLib_C10_full.mrb
(input data + results, Slicer mrb file. 50 MB).

12
RegLib C12: Abdominal MR-CT Align abdominal MRI with CT
liver tumor affine + nonrigid CT RegLib_C12.mrb
(input data only , Slicer mrb file. 35 MB)

RegLib_C12_full.mrb
(input data + results, Slicer mrb file. 68 MB).

14
RegLib C14: MR-PET Align brain PET with low-res MRI
brain affine + nonrigid CT RegLib_C14.mrb
(input data only , Slicer mrb file. 9 MB)

RegLib_C14_full.mrb
(input data + results, Slicer mrb file. 22 MB).

15
RegLib C15: AC-PC AC-PC alignment of brain MRI
brain affine + nonrigid CT RegLib_C15.mrb
(input data only (incl. example fiducials) , Slicer mrb file. 22 MB)

RegLib_C15_full.mrb
(input data + results, Slicer mrb file. 22 MB).

17
RegLib C17: Abdominal MR-CT Preop MRI to intraop interventional CT
abdominal affine CT RegLib_C17.mrb
(input data only (incl. example fiducials) , Slicer mrb file. 10 MB)

RegLib_C17_full.mrb
(input data + results, Slicer mrb file. 12 MB).

20
RegLib C20 Thumb1.png
Alignment of PET/CT follow-up to baseline
full body rigid + affine + nonrigid PET/CT RegLib_C20.mrb
(input data only , Slicer mrb file. 76 MB)

RegLib_C20_full.mrb
(input data + results, Slicer mrb file. 171 MB).

21
RegLib C21 Thumb1.png
Alignment of knee MRI (2 different subjects)
knee rigid + affine + nonrigid MRI RegLib_C21.mrb (input data + results, Slicer mrb file. 12 MB).
27
RegLib C27 Thumb4.png
Alignment of DTI scan to structural reference T1-SPGR for surgical planning (tumor resection)
brain tumor affine + nonrigid DTI RegLib_C27.mrb
(input data, Slicer mrb file 50MB)

RegLib_C27_full.mrb
(input data + results, Slicer mrb file 114MB)

29
RegLib C29 Thumb.png
Alignment of DTI scan to structural reference T2/T1-SPGR for surgical planning (tumor resection)
brain tumor affine + nonrigid DTI RegLib_C29_raw.mrb
(input data, Slicer mrb file. 71 MB).

RegLib_C29_full.mrb
(input data+results, Slicer mrb file. 124 MB).

32
RegLib C32 Thumb4.png
Alignment of structural reference T1 to a DTI scan
brain affine + nonrigid DTI RegLib_C32.mrb (input data, Slicer mrb file. 31 MB).

RegLib_C32_full.mrb (input data+results, Slicer mrb file. 36 MB).

37 UnderConstruction.png
RegLib C37: tumor resection brain tumor resection
brain non-rigid MRI RegLib_C37.mrb
(input data only, Slicer mrb file. 12 MB)

RegLib_C7_full.mrb
(input data + results, Slicer mrb file. 36 MB).

38
RegLib C38 Thumb5.png
Alignment of multi-sequence MRI
traumatic brain injury (TBI) rigid MRI RegLib_C38.mrb (input data, Slicer mrb file. 42 MB).
39
RegLib C39: in vitro CT of human vertebra in vitro CT of human vertebra before and after structural damage
vertebra rigid CT RegLib_C39.mrb
(input data only, Slicer mrb file. 25 MB)

RegLib_C39_full.mrb
(input data + results, Slicer mrb file. 45 MB).

40
RegLib C40: micro CT of material sample register micro-CT of wood sample to quantify/model structural changes
wood sample non-rigid micro-CT RegLib_C40.mrb
(input data only, Slicer mrb file. 32 MB)

RegLib_C40_full.mrb
(input data + results, Slicer mrb file. 100 MB).

41
RegLib C41: mouse brain MRI Align two distinct mouse brain MRIs
mouse brain non-rigid MRI RegLib_C41.mrb
(input data only, Slicer mrb file. 32 MB)

RegLib_C41_full.mrb
(input data + results, Slicer mrb file. 100 MB).

42
RegLib C42: pediatric MRI autism
brain non-rigid MRI RegLib_C42.mrb
(input data only, Slicer mrb file. 12 MB)

RegLib_C42_full.mrb
(input data + results, Slicer mrb file. 36 MB).

44
RegLib C44: pelvic MRI pelvis
abdominal non-rigid MRI RegLib_C44.mrb
(input data only, Slicer mrb file. 74 MB)

RegLib_C44_full.mrb
(input data + results, Slicer mrb file. 82 MB).

46
RegLib C46: 2D cine MRI of breathing cycle 2D cine MRI of breathing cycle
abdominal non-rigid 2D , batch processing MRI RegLib_C46.mrb
(input data (ref + 1 slice only), Slicer mrb file. 0.6 MB)

RegLib_C46_Data.zip
(input data + results, zip file with original DICOM + registration script. 65 MB).

48
RegLib C48: Fiducial Registration of Abdominal MR-CT Preop MRI to intraop interventional CT
abdominal Fiducial-based rigid CT RegLib_C48.mrb
(input data only (incl. example fiducials) , Slicer mrb file. 10 MB)

RegLib_C48_full.mrb
(input data + results, Slicer mrb file. 12 MB).

49
RegLib C49: Pediatric Brain MR-DTI Pediatric Brain MR-DTI
brain affine + BSpline MRI RegLib_C49.mrb
(input data only (incl. example fiducials) , Slicer mrb file. 50 MB)

RegLib_C49_full.mrb
(input data + results, Slicer mrb file. 82 MB).

50
RegLib C50: Mouse CT mouse brain micro-CT
mouse brain affine + BSpline micro-CT RegLib_C50.mrb
(input data only (incl. example fiducials) , Slicer mrb file. 50 MB)

RegLib_C50_full.mrb
(input data + results, Slicer mrb file. 82 MB).