• dmri_bids_config

USAGE: dmri_bids_config

Required inputs

• --in <directory>:

  • Path to the input data (the top-level BIDS directory, not a single subject or session directory)

At least one of the following two is required

• --c <file>:

  • Output TRACULA configuration file

  --f <file>:

  • Output FSGD file (default: append .fsgd to argument of --c)

Optional inputs

• --fsdir <directory>:

  • FreeSurfer SUBJECTS_DIR for this study (Must either specify here or with: setenv SUBJECTS_DIR ...)

  --trdir <directory>:

  • Output TRACULA directory for this study

    (If not specified, TRACULA will use the FreeSurfer SUBJECTS_DIR)

  --acq <name>:

  • Only use diffusion MRI scans collected with this acquisition (The name of the NIfTI volumes in BIDS must include the string acq- followed by this name)