Module Detail Information

Name:BrainSuite Diffusion Pipeline
Type: Module
Short URL:
http://bit.ly/1B7EgB2
Description:BrainSuite Diffusion Pipeline (BDP) co-registers diffusion and T1 weighted anatomical images. It can also correct diffusion images for geometric distortions due to the use of Echo-Planar Imaging (EPI) sequences in diffusion MRI. The corrected diffusion images are then used to estimate diffusion tensors and orientation distribution functions (ODFs). Co-registration to anatomical space allows for automated connectivity analysis if a corresponding MPRAGE scan has been extracted and labeled by BrainSuite13 along with Surface Volume Registration (SVReg). For more information, please see http://brainsuite.bmap.ucla.edu/diffusion BrainSuite Diffusion Pipeline is distributed under the license found at: http://brainsuite.bmap.ucla.edu/about/terms-of-use/ Authored by C. Bhushan and J. P. Haldar, Biomedical Imaging Group, Signal and Image Processing Institute, Department of Electrical Engineering, University of Southern California, Los Angeles, CA --------------------- Usage: bdp13.sh [OPTIONAL FLAGS] -d [...] bdp13.sh [OPTIONAL FLAGS] --nii --bvec --bval bdp13.sh --check-for-updates bdp13.sh --version bdp13.sh --help All flags are case-insensitive and are optional, unless mentioned otherwise.
Executable:
/bdp13p17_linux/bdp13.sh
Input Parameters:
 - bfc file
 - original nifti input
 - bvec
 - bval
 - bmat
 - t1 mask
 - dwi mask
 - dicom path
 - distortion direction
 - tensor
 - FRACT
 - FRT
 - version
 - check for updates
 - help
 - diffusion coord
 - no intensity corr
 - no distortion corr
 - odf lambda
 - transform diffusion volume
 - transform t1 volume
 - transform interpolation
 - only transform data
 - fieldmap correction
 - ignore fieldmap fov
 - echo spacing
 - fieldmap smooth
 - generate stats
 - only generate stats
 - force partial roi stats
 - custom diffusion label
 - custom t1 label
 - custom label xml
 - threads
 - low memory
 - ignore memory
Output Parameters:
 - output dir
File size:63.9 KB
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