arf3DS4 (version 2.5-4)

getAtlasLabels: Find anatomical atlas labels.

Description

getAtlasLabels finds anatomical atlas labels for a set of coordinates (either native ARF space or standard MNI space). It requires a working copy of FSL.

Usage

getAtlasLabels(coordinates, registration, coortype = c("arf", "mni"), 
 atlas = c("both", "Talairach", "HarvardOxford"), ...)

Arguments

coordinates

Matrix with three columns (x,y,z) containing coordinates of a region. Multiple regions are in the rows of the matrix.

registration

A "registration" object belonging to the data the coordinates are from (see registration).

coortype

In what coordinate space are the coordinates (ARF native or MNI space).

atlas

For which atlases should the labels be returned? Currently only 'talairach' and 'harvardOxford' are available.

...

Arguments passed to the atlas lookup functions (FSLDIR indicates the FSL directory, which is '1mm' or '2mm')

Value

• Returns a list of length nrow(coordinates) with a talairach and/or a harvard slot containing the labels.

Details

getAtlasLabels only works with a working copy of a full FSL installation (>=4.1).

References

See http://www.fmrib.ox.ac.uk/fsl/ on how to obtain FSL and licences. See http://www.fmrib.ox.ac.uk/fsl/data/atlas-descriptions.html on information on the atlases.

See Also

registration, model, setRegFiles