Package that provides tools for brain MRI Deep Learning pre-processing.

Note

This page is a reference documentation. It only explains the function signature, and not how to use it. Please refer to the gallery for the big picture.

brainprep.qc.parse_cat12vbm_roi(xml_filenames, output_file, iterparse={'neuromorphometrics': ['ids', 'Vgm', 'Vcsf']})[source]¶

Parse the cat12vbm xml generated rois files for all subjects.

Parameters:

xml_filenames : list or str(regex,regex)

regex to the CAT12 VBM catROI and cat xml files for all subjects: <PATH>/label/catROI_sub-*_ses-*_T1w.xml, <PATH>/report/cat_sub-*_ses-*_T1w.xml.

output : str

the destination folder.

iterparse : dict

a dictionary with the region type to focus on as key, and the list of data to return as values.

Returns:

output_file : str

rois tsv path.