Vip Split Brain

Split the brain into three parts (hemispheres + cerebellum)

Description

The basic principle of this procedure is described in Ana Split Brain From Brain Mask. Furthermore, a lot of information may be found in the log file.

For more information and to discover a funny alternative to the mathematical morphology based approach:
Shape bottlenecks and Conservative Flow systems, J.- F. Mangin, J. Regis and V. Frouin IEEE/SIAM MMBIA Workshop (Math. Methods in Biomed. Image Analysis), San Francisco, IEEE Press 319-328, 1996

You can also try the commandline:
VipSplitBrain -help

Parameters

mri_corrected: T1 MRI Bias Corrected ( input )

Use_template: Boolean ( input )

split_template: Hemispheres Template ( optional, input )

brain_mask: T1 Brain Mask ( input )

histo_analysis: Histo Analysis ( input )

split_mask: Split Brain Mask ( output )

Commissure_coordinates: Commissure coordinates ( optional, input )

white_algo: Choice ( optional, input )

mult_factor: Float ( optional, input )

threshold for white matter: mean - mult_factor*sigma

bary_factor: Float ( input )

threshold for white matter as barycenter between grey and white

white_threshold: Integer ( optional, input )

direct input

initial_erosion: Float ( input )

cc_min_size: Integer ( input )

Technical information

Toolbox : Morphologist

User level : 2

Identifier : VipSplitBrain

File name : brainvisa/toolboxes/morphologist/processes/segmentationpipeline/components_obsolete/segmentation/VipSplitBrain.py

Supported file formats :

mri_corrected :

GIS image, VIDA image, NIFTI-1 image, MINC image, gz compressed MINC image, DICOM image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, TIFF(.tif) image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

split_template :

GIS image, VIDA image, NIFTI-1 image, MINC image, gz compressed MINC image, DICOM image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, TIFF(.tif) image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

brain_mask :

GIS image, VIDA image, NIFTI-1 image, MINC image, gz compressed MINC image, DICOM image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, TIFF(.tif) image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

histo_analysis :

Histo Analysis

split_mask :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

Commissure_coordinates :

Commissure coordinates