Difference between revisions of "Documentation/Nightly/Extensions/SlicerDMRI"
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* DICOM2Full Brain Tractography: | * DICOM2Full Brain Tractography: | ||
| − | * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]]: | + | * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]]: Creates a brain mask from a diffusion weighted image volume |
| − | * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]]: | + | * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]]: Estimates the diffusion tensor model from diffusion weighted images. |
| − | * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]]: | + | * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]]: Computes scalar measures from a diffusion tensor dataset. |
| − | * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]]: | + | * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]]: Converts diffusion weighted MR images in dicom series into Nrrd format for analysis in Slicer. |
| − | * DWI to Full Brain Tractography: | + | * DWI to Full Brain Tractography: |
| − | + | * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]]: Implements DT image resampling through the use of itk Transforms. | |
| − | * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]]: | + | * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]]: Implements image and vector-image resampling through the use of its Transforms. |
| − | * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]]: | + | * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]]: Allows the user to modify the display of diffusion tractography. |
| − | * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]]: | + | * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]]: Computes whole-fiber scalar measurements from a directory of VTK fiber bundle files |
| − | * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]]: | + | * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]]: Allows a user to select tracts passing or not passing through single or multiple labels. |
| − | * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]]: | + | * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]]: Seeds tractography from a Diffusion Tensor Image (DTI) within a region defined by a label map. |
| − | * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]]: | + | * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]]: Allows interactive seeding of DTI fiber tracts starting from a list of fiducial points or vertices of a model, or a label map volume. |
| − | * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]]: | + | * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]]: Allows a user to set the specified label value in the label map at every vertex in each of the fibers in a bundle. |
| − | * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]]: | + | * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]]: Traces fibers in a DWI Volume using the multiple tensor unscented Kalman Filter methodology. |
| − | * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]]: | ||
{{documentation/{{documentation/version}}/extension-section|References}} | {{documentation/{{documentation/version}}/extension-section|References}} | ||
Revision as of 19:56, 11 October 2016
Home < Documentation < Nightly < Extensions < SlicerDMRI
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For the latest Slicer documentation, visit the read-the-docs. |
Introduction and Acknowledgements
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Extension Description
SlicerDMRI extension hosts various modules to facilitate
- processing and management of diffusion MRI image data
- utilizing diffusion MRI tractography for neuroscience studies and for planning image-guided interventions
- quantitative analysis of diffusion MRI data
Modules
- DICOM2Full Brain Tractography:
- Diffusion Brain Masking: Creates a brain mask from a diffusion weighted image volume
- Diffusion Tensor Estimation: Estimates the diffusion tensor model from diffusion weighted images.
- Diffusion Tensor Scalar Maps: Computes scalar measures from a diffusion tensor dataset.
- DWIConverter: Converts diffusion weighted MR images in dicom series into Nrrd format for analysis in Slicer.
- DWI to Full Brain Tractography:
- Resample DTIVolume: Implements DT image resampling through the use of itk Transforms.
- Resample Scalar/Vector/DWI Volume: Implements image and vector-image resampling through the use of its Transforms.
- Tractography Display: Allows the user to modify the display of diffusion tractography.
- Tractography Measurements: Computes whole-fiber scalar measurements from a directory of VTK fiber bundle files
- Tractography ROI Selection: Allows a user to select tracts passing or not passing through single or multiple labels.
- Tractography ROI Seeding: Seeds tractography from a Diffusion Tensor Image (DTI) within a region defined by a label map.
- Tractography Seeding: Allows interactive seeding of DTI fiber tracts starting from a list of fiducial points or vertices of a model, or a label map volume.
- Tractography to Mask Image: Allows a user to set the specified label value in the label map at every vertex in each of the fibers in a bundle.
- UKFTractography: Traces fibers in a DWI Volume using the multiple tensor unscented Kalman Filter methodology.
References
[1] O’Donnell LJ, Westin CF. An introduction to diffusion tensor image analysis. Neurosurgery clinics of North America. 2011 Apr 30;22(2):185-96.
Information for Developers
- SlicerSlicerDMRI organization page on github: https://github.com/SlicerDMRI
