Difference between revisions of "2012 Summer Project Week:DifficultRegistration"
From NAMIC Wiki
m (Text replacement - "[http://www.na-mic.org/Wiki/images/" to "[https://na-mic.org/w/images/") |
|||
| (8 intermediate revisions by 2 users not shown) | |||
| Line 12: | Line 12: | ||
==Registration Result Visualization== | ==Registration Result Visualization== | ||
| + | |||
<b>Slicer:BRAINS<br>[[Image:IntraOp_Slicer-BRAINS_BSpline.gif|400px|lleft|IntraOp via BRAINS]]<br> | <b>Slicer:BRAINS<br>[[Image:IntraOp_Slicer-BRAINS_BSpline.gif|400px|lleft|IntraOp via BRAINS]]<br> | ||
NiftyReg<br>[[Image:mr-results-nifityreg.gif|400px|lleft|IntraOp via BRAINS]]<br> | NiftyReg<br>[[Image:mr-results-nifityreg.gif|400px|lleft|IntraOp via BRAINS]]<br> | ||
| Line 49: | Line 50: | ||
<h3>Progress</h3> | <h3>Progress</h3> | ||
| − | + | We held a general discussion of registration challenges in the community. Results were generated for head and neck data (Ivan Kolesov), three registration approaches were evaluated on challenging head and body images: (NiftyReg - Marc Modat), (Slicer:BRAINS - Dominik Meier), (SIFT Landmarks - Matthew Toews). | |
<ul> | <ul> | ||
<li>Registration of difficult brain images is successful, body images remain challenging. | <li>Registration of difficult brain images is successful, body images remain challenging. | ||
| + | <li>Registration direction has an important impact, i.e. which images are designed as fixed or moving. Symmetric or bi-directional registration is helpful. | ||
<li>Masking of problematic image regions, e.g. pathology, is an important but time-consuming pre-processing task that could be further investigated or automated. For instance, interactive masking/segmentation of pathology, linking registration and masking. | <li>Masking of problematic image regions, e.g. pathology, is an important but time-consuming pre-processing task that could be further investigated or automated. For instance, interactive masking/segmentation of pathology, linking registration and masking. | ||
| − | |||
</ul> | </ul> | ||
</div> | </div> | ||
| Line 75: | Line 76: | ||
Stefan Klein</td><td>Erasmus Medical Center</td><td>General Registration</td><td></td><td> | Stefan Klein</td><td>Erasmus Medical Center</td><td>General Registration</td><td></td><td> | ||
</td><tr><td> | </td><tr><td> | ||
| − | Ivan Kolesov</td><td> | + | Ivan Kolesov</td><td>Georgia Tech</td><td>Articulated, point-based registration</td><td> Plastimatch, NiftyReg </td><td> [http://www.na-mic.org/Wiki/index.php/2012_Summer_Project_Week:Deformable_Registration_for_Head_and_Neck Head Neck Results] |
</td><tr><td> | </td><tr><td> | ||
Dominik Meier</td><td>BWH</td><td>General registration</td><td>Slicer: BRAINS</td><td> | Dominik Meier</td><td>BWH</td><td>General registration</td><td>Slicer: BRAINS</td><td> | ||
| Line 81: | Line 82: | ||
TBI:[[Image:TBI_Slicer-BRAINS_BSpline.gif|60px|lleft|TBI via BRAINS]]<br> | TBI:[[Image:TBI_Slicer-BRAINS_BSpline.gif|60px|lleft|TBI via BRAINS]]<br> | ||
CT torso: FAILED</td><tr><td> | CT torso: FAILED</td><tr><td> | ||
| − | Marc Modat</td><td>UCL</td><td>neuro-deg. diseases, longitudinal</td><td>NiftiReg</td><td>[ | + | Marc Modat</td><td>UCL</td><td>neuro-deg. diseases, longitudinal</td><td>NiftiReg</td><td>[https://na-mic.org/w/images/d/d5/NiftyReg_projectWeek_test.pdf Some test res]</td><tr><td> |
Albert Motillo</td><td>GE</td><td>Parsing CT, Detection</td><td></td><td> | Albert Motillo</td><td>GE</td><td>Parsing CT, Detection</td><td></td><td> | ||
</td><tr><td> | </td><tr><td> | ||
Latest revision as of 18:27, 10 July 2017
Home < 2012 Summer Project Week:DifficultRegistration
Registration Result Visualization
Slicer:BRAINS
NiftyReg
SIFT Landmark
Key Investigators
- Erasmus Medical Center: Stefan Klein
- University College London: Marc Modat
- UNC: Aditya Gupta, Martin Styner
- BWH: Matthew Toews, Petter Risholm, Dominik Meier, William Wells
Objective
To identify solutions to difficult image registration problems that challenge the limits of current technology. Aspects of difficulty will include:
- inter-subject registration
- truncation, missing tissue
- unknown initialization
- inter-species registration
- articulated deformation
Approach, Plan
A set of difficult pair-wise registration problems will be considered. Participants will discuss workable solutions based on their expertise and background, and these solutions will be documented.
Registration cases can be found here.
- CT: atlas and torso have flipped orientation: Correction Xforms here: Flip CT atlas&torso, zip file with 2 .tfm files
Progress
We held a general discussion of registration challenges in the community. Results were generated for head and neck data (Ivan Kolesov), three registration approaches were evaluated on challenging head and body images: (NiftyReg - Marc Modat), (Slicer:BRAINS - Dominik Meier), (SIFT Landmarks - Matthew Toews).
- Registration of difficult brain images is successful, body images remain challenging.
- Registration direction has an important impact, i.e. which images are designed as fixed or moving. Symmetric or bi-directional registration is helpful.
- Masking of problematic image regions, e.g. pathology, is an important but time-consuming pre-processing task that could be further investigated or automated. For instance, interactive masking/segmentation of pathology, linking registration and masking.
Delivery Mechanism
Attention Participants: Please log in and update/correct entries in the table below. For bonus points, please provide links or solutions to image registration problems on this page.
| Participant | Affiliation | Context | Techniques | Solutions/Links |
|---|---|---|---|---|
| Steven Aylward | Kitware | CT, US, ressection, brain tumors, changing pathology, sliding organ | Sliding Geometry, Geometric Metamorphosis | |
| Karl Diedrich | AZE | Rigid registration, abdomen | Multi-resolution registration | |
| James Fishbaugh | SCI | Shape analysis and registration | ||
| Aditya Gupta | UNC | DTI, enlarged lateral ventricles | ||
| Stefan Klein | Erasmus Medical Center | General Registration | ||
| Ivan Kolesov | Georgia Tech | Articulated, point-based registration | Plastimatch, NiftyReg | Head Neck Results |
| Dominik Meier | BWH | General registration | Slicer: BRAINS |
IntraOp: |
| Marc Modat | UCL | neuro-deg. diseases, longitudinal | NiftiReg | Some test res |
| Albert Motillo | GE | Parsing CT, Detection | ||
| Simrin Nagpal | Queens University | CT/US registration | ||
| Samon Nuranian | UBC | US-guided intervension, spine | ||
| Andre Remi | UCLA | Longitudinal changes in TBI, tissue types | ||
| Peter Risholm | BWH | Brain, head and neck, radiation therapy | Probabilistic Uncertainty | |
| Samira Sojoudi | UBC | Spine, CT/US registration | ||
| Matthew Toews | BWH | General registration | SIFT landmark correspondence |
MR-brain: |
| Bo Wang | Utah | TBI image segmentation | ||
| Kevin Wang | Princess Margaret Hospital | Adaptive radiation therapy, longitudinal | ||
| William Wells | BWH | Interventional applications | Theory: Segmentation, Registration |
Links for Data
- Matt's initial examples
- Slicer Registration Case Library
- XCAT
- DTI Files Enlarged LV registration with normal control
- DWI Files Enlarged LV registration with normal control
- TBI Cases
- TumorSim longitudinal data: To appear at http://midas3.kitware.com
Links for Tools & Methods
- Sliding Geometries Registration: http://public.kitware.com/Wiki/TubeTK
- Geometric Metamorphosis: https://github.com/calaTK/calaTK
Links for Papers
- Sliding Geometries
- ISBI 2011: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3141338/
- Abdominal Imaging, MICCAI, 2011: http://www.springerlink.com/content/552824638l375645/
- Geometric MetaMorphosis
