This program computes a number of anatomical properties.
Usage
ni_freesurfer_parcellation_stats(
aseg,
brainmask,
hemisphere,
lh_pial,
lh_white,
rh_pial,
rh_white,
ribbon,
subject_id,
thickness,
transform,
wm,
args = NULL,
in_annotation = NULL,
in_cortex = NULL,
in_label = NULL,
mgz = NULL,
out_color = NULL,
out_table = NULL,
surface = NULL,
tabular_output = NULL,
th3 = NULL,
.cwd = NULL,
.env = NULL,
.engine = NULL,
.profile = NULL,
dry_run = FALSE,
echo = interactive()
)Arguments
- aseg
Character; file path. Input file must be <subject_id>/mri/aseg.presurf.mgz Required.
- brainmask
Character; file path. Input file must be <subject_id>/mri/brainmask.mgz Required.
- hemisphere
Character; one of: "lh", "rh". Hemisphere being processed Required.
- lh_pial
Character; file path. Input file must be <subject_id>/surf/lh.pial Required.
- lh_white
Character; file path. Input file must be <subject_id>/surf/lh.white Required.
- rh_pial
Character; file path. Input file must be <subject_id>/surf/rh.pial Required.
- rh_white
Character; file path. Input file must be <subject_id>/surf/rh.white Required.
- ribbon
Character; file path. Input file must be <subject_id>/mri/ribbon.mgz Required.
- subject_id
Character. Subject being processed Required.
- thickness
Character; file path. Input file must be <subject_id>/surf/?h.thickness Required.
- transform
Character; file path. Input file must be <subject_id>/mri/transforms/talairach.xfm Required.
- wm
Character; file path. Input file must be <subject_id>/mri/wm.mgz Required.
- args
Character. Additional parameters to the command
- in_annotation
Character; file path. compute properties for each label in the annotation file separately
- in_cortex
Character; file path. Input cortex label
- in_label
Character; file path. limit calculations to specified label
- mgz
Logical. Look for mgz files
- out_color
Character; file path. Output annotation files's colortable to text file
- out_table
Character; file path. Table output to tablefile
- surface
Character. Input surface (e.g. 'white')
- tabular_output
Logical. Tabular output
- th3
Logical. turns on new vertex-wise volume calc for mris_anat_stats
- .cwd
Working directory override.
- .env
Named character vector of environment variables.
- .engine
Execution engine override.
- .profile
Runtime profile override.
- dry_run
Logical; preview command without executing.
- echo
Logical; echo stdout/stderr in real time.