brainprep.interfaces.freesurfer: FreeSurfer functions.

FreeSurfer functions.

Functions

aparcstats2table(subjects, session, hemi, ...)	Summarizes the stats data '?h.aparc.stats' for both templates (Desikan & Destrieux) using FreeSurfer's aparcstats2table.
asegstats2table(subjects, session, output_dir)	Summarizes the volumetric data for subcortical brain structures 'aseg.stats' using FreeSurfer's asegstats2table.
brainmask(image_file, output_dir, entities)	Skull-strip a BIDS-compliant anatomical image using FreeSurfer's mri_synthstrip.
freesurfer_command_status(log_file, command)	Check the status of a FreeSurfer recon-all process from its log file.
freesurfer_features_summary(workspace_dir, ...)	Summarizes the generated FreeSurfer features for all subjects.
freesurfer_tissues(workspace_dir, ...[, ...])	Binary masks for white matter (WM), gray matter (GM), cerebrospinal fluid (CSF), and whole brain based on FreeSurfer ribbon and wmparc segmentations.
fsaveragesym_projection(left_reg_file, ...)	Project the different cortical features to the 'fsaverage_sym' template space using FreeSurfer's mris_apply_reg.
fsaveragesym_surfreg(output_dir, entities)	Interhemispheric surface-based registration using the fsaverage_sym template, and FreeSurfer's xhemireg and surfreg.
localgi(output_dir, entities)	Local Gyrification Index (localGI or lGI).
mgz_to_nii(output_dir, entities)	Convert FreeSurfer images back to original Nifti space.
mri_convert(src_file, trg_file, reference_file)	Convert a source image and resample it to match the resolution, orientation, and voxel grid of a reference image using FreeSurfer's mri_convert.
mris_apply_reg(src_file, trg_file, ...)	Apply a surface-based registration to a cortical surface data file.
nextbrain(t1_file, output_dir, entities)	Uses NextBrain probabilistic atlas of the human brain, to segment ~300 distinct ROIs per hemisphere.
reconall(t1_file, output_dir, entities[, ...])	Brain parcellation using FreeSurfer's recon-all.
reconall_longitudinal(workspace_dir, ...)	Longitudinal brain parcellation using FreeSurfer's recon-all.
surfreg(output_dir, entities)	Surface-based registration to fsaverage_sym symmetric template.
xhemireg(output_dir, entities)	Symmetric mapping of the right hemisphere to the left hemisphere space.