Note

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

8.2.3. nilearn.datasets.fetch_atlas_harvard_oxford

nilearn.datasets.fetch_atlas_harvard_oxford(atlas_name, data_dir=None, symmetric_split=False, resume=True, verbose=1)[source]

Load Harvard-Oxford parcellations from FSL.

This function downloads Harvard Oxford atlas packaged from FSL 5.0 and stores atlases in NILEARN_DATA folder in home directory.

This function can also load Harvard Oxford atlas from your local directory specified by your FSL installed path given in data_dir argument. See documentation for details.

Parameters
atlas_namestring

Name of atlas to load. Can be: cort-maxprob-thr0-1mm, cort-maxprob-thr0-2mm, cort-maxprob-thr25-1mm, cort-maxprob-thr25-2mm, cort-maxprob-thr50-1mm, cort-maxprob-thr50-2mm, cort-prob-1mm, cort-prob-2mm, cortl-maxprob-thr0-1mm, cortl-maxprob-thr0-2mm, cortl-maxprob-thr25-1mm, cortl-maxprob-thr25-2mm, cortl-maxprob-thr50-1mm, cortl-maxprob-thr50-2mm, cortl-prob-1mm, cortl-prob-2mm, sub-maxprob-thr0-1mm, sub-maxprob-thr0-2mm, sub-maxprob-thr25-1mm, sub-maxprob-thr25-2mm, sub-maxprob-thr50-1mm, sub-maxprob-thr50-2mm, sub-prob-1mm, sub-prob-2mm

data_dirstring, optional

Path of data directory where data will be stored. Optionally, it can also be a FSL installation directory (which is dependent on your installation). Example, if FSL is installed in /usr/share/fsl/ then specifying as ‘/usr/share/’ can get you Harvard Oxford atlas from your installed directory. Since we mimic same root directory as FSL to load it easily from your installation.

symmetric_splitbool, optional

If True, lateralized atlases of cort or sub with maxprob will be returned. For subcortical types (sub-maxprob), we split every symmetric region in left and right parts. Effectively doubles the number of regions.

Note

Not implemented for full probabilistic atlas (-prob- atlases).

Default=False.

resumebool, optional

Whether to resume download of a partly-downloaded file. Default=True.

verboseint, optional

Verbosity level (0 means no message). Default=1.

Returns
datasklearn.datasets.base.Bunch

Dictionary-like object, keys are:

  • “maps”: nibabel.Nifti1Image, 4D maps if a probabilistic atlas is requested and 3D labels if a maximum probabilistic atlas was requested.

  • “labels”: string list, labels of the regions in the atlas.

See also

nilearn.datasets.fetch_atlas_juelich