MRI Processing#

Step by step instructions for using gui.coregistration():

Coregistration for subjects with structural MRI

Scaling a template MRI for subjects for which no MRI is available

`coreg.get_mni_fiducials`(subject[, ...])	Estimate fiducials for a subject.
`coreg.estimate_head_mri_t`(subject[, ...])	Estimate the head->mri transform from fsaverage fiducials.
`io.read_fiducials`(fname[, verbose])	Read fiducials from a fiff file.
`io.write_fiducials`(fname, pts[, ...])	Write fiducials to a fiff file.
`get_montage_volume_labels`(montage, subject)	Get regions of interest near channels from a Freesurfer parcellation.
`gui.coregistration`([tabbed, split, width, ...])	Coregister an MRI with a subject's head shape.
`gui.locate_ieeg`(info, trans, base_image[, ...])	Warning DEPRECATED: Use the `mne_gui_addons` package instead, will be removed in version 1.5.0.
`create_default_subject`([fs_home, update, ...])	Create an average brain subject for subjects without structural MRI.
`head_to_mni`(pos, subject, mri_head_t[, ...])	Convert pos from head coordinate system to MNI ones.
`head_to_mri`(pos, subject, mri_head_t[, ...])	Convert pos from head coordinate system to MRI ones.
`read_freesurfer_lut`([fname])	Read a Freesurfer-formatted LUT.
`read_lta`(fname[, verbose])	Read a Freesurfer linear transform array file.
`read_talxfm`(subject[, subjects_dir, verbose])	Compute MRI-to-MNI transform from FreeSurfer talairach.xfm file.
`scale_mri`(subject_from, subject_to, scale[, ...])	Create a scaled copy of an MRI subject.
`scale_bem`(subject_to, bem_name[, ...])	Scale a bem file.
`scale_labels`(subject_to[, pattern, ...])	Scale labels to match a brain that was previously created by scaling.
`scale_source_space`(subject_to, src_name[, ...])	Scale a source space for an mri created with scale_mri().
`transforms.apply_volume_registration`(moving, ...)	Apply volume registration.
`transforms.apply_volume_registration_points`(...)	Apply volume registration.
`transforms.compute_volume_registration`(...)	Align two volumes using an affine and, optionally, SDR.
`vertex_to_mni`(vertices, hemis, subject[, ...])	Convert the array of vertices for a hemisphere to MNI coordinates.
`coreg.Coregistration`(info, subject[, ...])	Class for MRI<->head coregistration.