run_basic_structural_segmentation

qx_utilities.processing.fs.run_basic_structural_segmentation(sinfo, options, overwrite=False, thread=0)

run_basic_structural_segmentation [... processing options]

Run basic structural segmentation (BET + FAST) on NIL preprocessed images.

Parameters

--batchfile (str, default ''):

The batch.txt file with all the sessions information.

--sessions (str, default ''):

A list of sessions to process.

--sessionsfolder (str, default '.'):

The path to the study/sessions folder.

--overwrite (str, default 'no'):

Whether to overwrite existing outputs (yes) or not (no).

--logfolder (str, default ''):

The path to the folder where runlogs and comlogs are to be stored, if other than default.

--bet (str, default ''):

Options passed to FSL BET.

--fast (str, default ''):

Options passed to FSL FAST.