| Deletions are marked like this. | Additions are marked like this. |
| Line 6: | Line 6: |
| -xform %s apply LTA transform to align mask to input volume | -xform %s -- apply LTA transform to align mask to input volume |
| Line 8: | Line 8: |
| -invert reversely apply -xform | -invert -- reversely apply -xform |
| Line 10: | Line 10: |
| -lta_src %s source volume for -xform (if not available from the xform file) | -lta_src %s -- source volume for -xform (if not available from the xform file) |
| Line 12: | Line 12: |
| -lta_dst %s target volume for -xform (if not available from the xform file) | -lta_dst %s -- target volume for -xform (if not available from the xform file) |
| Line 14: | Line 14: |
| -T # threshold mask volume at # (i.e., all values <= T is considered as zero) | -T # -- threshold mask volume at # (i.e., all values <= T is considered as zero) |
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)