Difference between revisions of "2012 Winter Project Week:CTLiverRegistration"
From NAMIC Wiki
Ktdiedrich (talk | contribs) |
Ktdiedrich (talk | contribs) |
||
| Line 5: | Line 5: | ||
<div style="margin: 20px;"> | <div style="margin: 20px;"> | ||
| + | |||
<div style="width: 27%; float: left; padding-right: 3%;"> | <div style="width: 27%; float: left; padding-right: 3%;"> | ||
<h3>Objective</h3> | <h3>Objective</h3> | ||
| − | Register CT images of livers taken at different time points for the purpose of | + | Register CT images of livers taken at different time points for the purpose of detecting changes in liver tumors. |
| − | detecting changes in liver tumors. | ||
| − | |||
</div> | </div> | ||
| − | <div style="width: | + | <div style="width: 97%; float: left; padding-right: 3%;"> |
<h3>Approach, Plan</h3> | <h3>Approach, Plan</h3> | ||
| − | 1. Acquire 4D liver data sets. | + | <ol> |
| − | 2. Segment bone using upper and lower Hounsfield unit threshold. | + | <li>1. Acquire 4D liver data sets. </li> |
| − | 3. Create a distance map from the threshold segmented bones. The bones are very sparse making poor registration subjects. | + | <li>2. Segment bone using upper and lower Hounsfield unit threshold. </li> |
| − | 4. Conduct a fixed registration of the fixed and moving bones near the liver using BRAINSfit in slicer. | + | <li>3. Create a distance map from the threshold segmented bones. The bones are very sparse making poor registration subjects. </li> |
| − | 5. Apply the resulting transform to the full moving liver data set. | + | <li>4. Conduct a fixed registration of the fixed and moving bones near the liver using BRAINSfit in slicer. </li> |
| − | + | <li>5. Apply the resulting transform to the full moving liver data set. </li> | |
| + | </ol> | ||
</div> | </div> | ||
| − | <div style="width: | + | <div style="width: 97%; float: left;"> |
<h3>Progress</h3> | <h3>Progress</h3> | ||
| − | 1. Acquired additional 4D liver time series data sets for development and testing from http://midas.kitware.com/community/view/47. | + | <ol> |
| − | 2. Used Slicer to segment the bones using a lower threshold of 252. Segmented the bones with a label of 255 to allow blurring. | + | <li>1. Acquired additional 4D liver time series data sets for development and testing from http://midas.kitware.com/community/view/47. </li> |
| − | 3. ITK contains a filter class, itkSignedDanielssonDistanceMapImageFilter, http://www.itk.org/Doxygen/html/classitk_1_1SignedDanielssonDistanceMapImageFilter.html for creating a distance map. Need to develop a Slicer CLI module for generating distance maps of the fixed and moving bone images. | + | <li>2. Used Slicer to segment the bones using a lower threshold of 252. Segmented the bones with a label of 255 to allow blurring. </li> |
| − | 4. Registered two time points of the same patient as fixed and moving images in BRAINSfit using Initialize Transform Mode: useGeometryAlign Registration Phase: Rigid (6 DOF) AND Rigid+Scale (7DOF) AND Rigid+Scale+Skew (10 DOF). | + | <li>3. ITK contains a filter class, itkSignedDanielssonDistanceMapImageFilter, http://www.itk.org/Doxygen/html/classitk_1_1SignedDanielssonDistanceMapImageFilter.html for creating a distance map. Need to develop a Slicer CLI module for generating distance maps of the fixed and moving bone images. </li> |
| − | 5. Applied the resulting transform to the full moving liver data set in the Slicer Data module Nodes panel by dragging the moving liver data set onto the output transform name. | + | <li>4. Registered two time points of the same patient as fixed and moving images in BRAINSfit using Initialize Transform Mode: useGeometryAlign Registration Phase: Rigid (6 DOF) AND Rigid+Scale (7DOF) AND Rigid+Scale+Skew (10 DOF). </li> |
| − | + | <li>5. Applied the resulting transform to the full moving liver data set in the Slicer Data module Nodes panel by dragging the moving liver data set onto the output transform name. </li> | |
| + | </ol> | ||
</div> | </div> | ||
| − | <div style="width: | + | <div style="width: 97%; float: left;"> |
<h3>Delivery mechanism</h3> | <h3>Delivery mechanism</h3> | ||
This work will be delivered to the NA-MIC Kit as a Slicer extension. | This work will be delivered to the NA-MIC Kit as a Slicer extension. | ||
Revision as of 23:37, 12 January 2012
Home < 2012 Winter Project Week:CTLiverRegistrationContents
Key Investigators
- AZE Research and Development, Karl Diedrich
- Brigham and Women's Hospital, Nobuhiko Hata
- Brigham and Women's Hospital, Atsushi Yamada
Objective
Register CT images of livers taken at different time points for the purpose of detecting changes in liver tumors.
Approach, Plan
- 1. Acquire 4D liver data sets.
- 2. Segment bone using upper and lower Hounsfield unit threshold.
- 3. Create a distance map from the threshold segmented bones. The bones are very sparse making poor registration subjects.
- 4. Conduct a fixed registration of the fixed and moving bones near the liver using BRAINSfit in slicer.
- 5. Apply the resulting transform to the full moving liver data set.
Progress
- 1. Acquired additional 4D liver time series data sets for development and testing from http://midas.kitware.com/community/view/47.
- 2. Used Slicer to segment the bones using a lower threshold of 252. Segmented the bones with a label of 255 to allow blurring.
- 3. ITK contains a filter class, itkSignedDanielssonDistanceMapImageFilter, http://www.itk.org/Doxygen/html/classitk_1_1SignedDanielssonDistanceMapImageFilter.html for creating a distance map. Need to develop a Slicer CLI module for generating distance maps of the fixed and moving bone images.
- 4. Registered two time points of the same patient as fixed and moving images in BRAINSfit using Initialize Transform Mode: useGeometryAlign Registration Phase: Rigid (6 DOF) AND Rigid+Scale (7DOF) AND Rigid+Scale+Skew (10 DOF).
- 5. Applied the resulting transform to the full moving liver data set in the Slicer Data module Nodes panel by dragging the moving liver data set onto the output transform name.
Delivery mechanism
This work will be delivered to the NA-MIC Kit as a Slicer extension.
References
Hans Johnson, Greg Harris, Kent Williams. BRAINSFit: Mutual Information Rigid Registrations of Whole-Brain 3D Images, Using the Insight Toolkit. The Insight Journal. 2009.
