• mri_mask

{{{Usage: mri_mask [options] <in vol> <mask vol> <out vol>

This program applies a mask volume (typically skull stripped).

Options:

• -xform %s ->apply LTA transform to align mask to input volume

  -invert ->reversely apply -xform

  -lta_src %s ->source volume for -xform (if not available from the xform file)

  -lta_dst %s ->target volume for -xform (if not available from the xform file)

  -T # ->threshold mask volume at # (i.e., all values <= T is considered as zero) }}}