rave_brain: Load 'FreeSurfer' or 'AFNI/SUMA' brain from 'RAVE'

In raveio: File-System Toolbox for RAVE Project

Load 'FreeSurfer' or 'AFNI/SUMA' brain from 'RAVE'

Description

Create 3D visualization of the brain and visualize with modern web browsers

Usage

rave_brain(
  subject,
  surfaces = "pial",
  use_141 = TRUE,
  recache = FALSE,
  clean_before_cache = FALSE,
  compute_template = FALSE,
  usetemplateifmissing = FALSE,
  include_electrodes = TRUE
)

Arguments

subject	character, list, or RAVESubject instance; for list or other objects, make sure subject$subject_id is a valid 'RAVE' subject 'ID'
surfaces	one or more brain surface types from "pial", "white", "smoothwm", "pial-outer-smoothed", etc.; check freesurfer_brain2
use_141	whether to use 'AFNI/SUMA' standard 141 brain
recache	whether to re-calculate cache; only should be used when the original 'FreeSurfer' or 'AFNI/SUMA' files are changed; such as new files are added
clean_before_cache	whether to clean the original cache before recache; only set it to be true if original cached files are corrupted
compute_template	whether to compute template mappings; useful when template mapping with multiple subjects are needed
usetemplateifmissing	whether to use template brain when the subject brain files are missing. If set to true, then a template (usually 'N27') brain will be displayed as an alternative solution, and electrodes will be rendered according to their 'MNI305' coordinates, or 'VertexNumber' if given.
include_electrodes	whether to include electrode in the model; default is true

Value

A 'threeBrain' instance if brain is found or usetemplateifmissing is set to true; otherwise returns NULL

Examples

# Please make sure DemoSubject is correctly installed
# The subject is ~1GB from Github

if(interactive()){
  brain <- rave_brain("demo/DemoSubject")

  if( !is.null(brain) ) { brain$plot() }

}

raveio documentation built on July 26, 2023, 5:29 p.m.