Produces a csv file mean voxel/vertex time series from a functional file <func>
within a seed mask <seed>.
Usage:
ciftify_meants [options] <func> <seed>
Arguments:
<func> functional data can be (nifti or cifti)
<seed> seed mask (nifti, cifti or gifti)
Options:
--outputcsv PATH Specify the output filename
--outputlabels PATH Specity a file to print the ROI row ids to.
--mask FILE brainmask (file format should match seed)
--roi-label INT Specify the numeric label of the ROI you want a seedmap for
--weighted Compute weighted average timeseries from the seed map
--hemi HEMI If the seed is a gifti file, specify the hemisphere (R or L) here
--debug Debug logging
-h, --help Prints this message
DETAILS:
The default output filename is <func>_<seed>_meants.csv inside the same directory
as the <func> file. This can be changed by specifying the full path after
the '--outputcsv' option. The integer labels for the seeds extracted can be printed
to text using the '--outputlabels' option.
If the seed file contains multiple interger values (i.e. an altas). One row will
be written for each integer value. If you only want a timeseries from one roi in
an atlas, you can specify the integer with the --roi-label option.
A weighted avereage can be calculated from a continuous seed if the --weighted
flag is given.
If a mask is given, the intersection of this mask and the seed mask will be taken.
If a nifti seed if given for a cifti functional file, wb_command -cifti separate will
try extract the subcortical cifti data and try to work with that.
Written by Erin W Dickie, March 17, 2016