meegpype.interfaces.freesurfer.aparc2aseg module

class meegpype.interfaces.freesurfer.aparc2aseg.Aparc2Aseg(**inputs)

Bases: FSCommand

Wrapped executable: mri_aparc2aseg.

Mandatory Inputs:

• out_file (a pathlike object or string representing a file) – Full path of file to save the output segmentation in. Maps to a command-line argument: --o %s.

• subject (a string) – Subject being processed. Maps to a command-line argument: --s %s. (Nipype default value: subject_id)

• subjects_dir (a pathlike object or string representing an existing directory) – Subjects directory.

Optional Inputs:

• annot_files (a list of items which are a pathlike object or string representing an existing file) – Make sure annot files are computed.

• args (a string) – Additional parameters to the command. Maps to a command-line argument: %s.

• atlas (a string) – Use specified label file instead of aparc. Maps to a command-line argument: --annot %s.

• environ (a dictionary with keys which are a bytes or None or a value of class ‘str’ and with values which are a bytes or None or a value of class ‘str’) – Environment variables. (Nipype default value: {})

• new_ribbon (a boolean) – Use mri/hemi.ribbon.mgz as a mask for the cortex. Maps to a command-line argument: --new-ribbon. Mutually exclusive with inputs: old_ribbon.

• old_ribbon (a boolean) – Use mri/hemi.ribbon.mgz as a mask for the cortex. Maps to a command-line argument: --old-ribbon. Mutually exclusive with inputs: new_ribbon.

Outputs:

out (a pathlike object or string representing an existing file) – The output file.