Converts annotations to atlas

Source: R/create-ggseg3d-atlas.R

This function will create an atlas ready data.frame for ggseg3d to plot with plotly.

aparc_2_mesh(
  subject = "fsaverage5",
  hemisphere = "rh",
  surface = "inflated",
  annot = "aparc",
  subjects_dir = freesurfer::fs_subj_dir(),
  annot_dir = file.path(subjects_dir, subject, "label"),
  output_dir = tempdir(),
  cleanup = TRUE,
  verbose = TRUE
)

Arguments

subject

Freesurfer subject, must exist in whatever subject directory specified or set in the environment with $SUBJECTS_DIR
hemisphere

hemisphere, either "rh" or "lh"
surface

surface from subjects surf-folder
annot

base-name of annot file
subjects_dir

Freesurfer subject directory
annot_dir

path to directory with annot-files
output_dir

output directory path
cleanup

logical to toggle removal of all intermediary files
verbose

logical indicating to be verbose or not

Value

data frame with one row per label

Details

Based on A. Winkler scripts

Examples

if (FALSE) {
dt <- aparc_2_mesh()
dt <- aparc_2_mesh(surface = "white")
dt <- aparc_2_mesh(hemisphere = "lh")
dt <- aparc_2_mesh(annot = "aparc.a2009s")
}