aparc_2_mesh: Converts annotations to atlas

In LCBC-UiO/ggsegExtra: Extra Utilities for the 'ggseg' and 'ggseg3d' Plotting Tools

Converts annotations to atlas

Description

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

Usage

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

Details

Based on A. Winkler scripts

Value

data frame with one row per label

Examples

## Not run: 
dt <- aparc_2_mesh()
dt <- aparc_2_mesh(surface = "white")
dt <- aparc_2_mesh(hemisphere = "lh")
dt <- aparc_2_mesh(annot = "aparc.a2009s")

## End(Not run)

LCBC-UiO/ggsegExtra documentation built on May 9, 2022, 1:07 a.m.