Difference between revisions of "EMSegmenter-Tasks:MRI-Human-Brain-Parcellation"
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==Pre-Processing== | ==Pre-Processing== | ||
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* 1 step: image inhomogeneity correction [http://www.slicer.org/slicerWiki/index.php/Modules:N4ITKBiasFieldCorrection-Documentation-3.6 N4ITKBiasFieldCorrection] | * 1 step: image inhomogeneity correction [http://www.slicer.org/slicerWiki/index.php/Modules:N4ITKBiasFieldCorrection-Documentation-3.6 N4ITKBiasFieldCorrection] | ||
* 2 step: atlas-to-target registration [http://www.slicer.org/slicerWiki/index.php/Modules:BRAINSFit BRAINSFit] | * 2 step: atlas-to-target registration [http://www.slicer.org/slicerWiki/index.php/Modules:BRAINSFit BRAINSFit] | ||
Revision as of 17:27, 30 November 2010
Home < EMSegmenter-Tasks:MRI-Human-Brain-ParcellationDescription
MRI Human Head pipeline for a finer-grained parcellation
Anatomical Tree
The anatomical tree represents the structures to be segmented. Node labels displayed below contain a human readable structure name and in parentheses the internally used structure name.
- Root
- background (BG)
- grey matter (GM)
- left temporal grey matter (LTGM)
- left temporal grey matter - region 1 (LTGM1)
- left temporal grey matter - region 2 (LTGM2)
- left temporal grey matter - region 3 (LTGM3)
- left temporal grey matter - region 4 (LTGM4)
- right temporal grey matter (RTGM)
- right temporal grey matter - region 1 (RTGM1)
- right temporal grey matter - region 2 (RTGM2)
- right temporal grey matter - region 3 (RTGM3)
- right temporal grey matter - region 4 (RTGM4)
- TODO (SUBGM)
- left temporal grey matter (LTGM)
- white matter (WM)
- left temporal white matter (LTWM)
- left temporal white matter - region 1 (LTWM1)
- left temporal white matter - region 2 (LTWM2)
- left temporal white matter - region 3 (LTWM3)
- left temporal white matter - region 4 (LTWM4)
- right temporal white matter (RTWM)
- right temporal white matter - region 1 (RTWM1)
- right temporal white matter - region 2 (RTWM2)
- right temporal white matter - region 3 (RTWM3)
- right temporal white matter - region 4 (RTWM4)
- TODO (SUBWM)
- left temporal white matter (LTWM)
- cerebrospinal fluid (CSF)
Atlas
The atlas hes been created by Padmapriya Srinivasan and Sylvain Bouix from (PNL-BWH)
Image Dimension = 256 x 256 x 220
Image Spacing = 0.9375 x 0.9375 x 0.9375
TODO, some details about atlas
Pre-Processing
- 1 step: image inhomogeneity correction N4ITKBiasFieldCorrection
- 2 step: atlas-to-target registration BRAINSFit
- 3 step: automatic mean/covariance calculation. (TODO Kilian)
Result
TODO: New Screenshots (Dominique)
- T1(3 views)
- Labelmap(3 views)
Collaborators
Padmapriya Srinivasan and Sylvain Bouix (PNL-BWH)
