fsImportVentricles.sh

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This script will import ventricles into an already existing FreeSurfer directory structure.

Usage: fsImportVentricles.sh dataFile [ options ]
 
Mandatory Arguments:

  dataFile      : A file containing your patient names and details, like this:
 
                  Patient   VentricleMask   Image  
                  ALLHA     Man_1684973420  02979-002-1.img
                  ALLFR     Man_1084266669  03929-002-1.img
                  
                  The first line is just text, and hence skipped.
                  
                  After that, you can use absolute or relative pathnames, using full filenames (including extension like .img).
                  
Options:


  -b beginRow   : is the start row in the dataFile.
  -e endRow     : is the end row in the dataFile.
                                    
  -s directory  : is the scans directory [ default is <current_dir>/scans ]
  -v directory  : is the vents directory [ default is <current_dir>/vents ]

  -d int        : Number of dilations to perform in mask. Default 0.