write.group.morph.standard: Write standard space group data to a standard FreeSurfer...

In dfsp-spirit/fsbrain: Managing and Visualizing Brain Surface Data

Write standard space group data to a standard FreeSurfer directory stucture.

Description

Write standard space group data to a standard FreeSurfer directory stucture.

Usage

write.group.morph.standard(
  subjects_dir,
  subjects_list,
  data,
  measure_name,
  hemi = "both",
  fwhm = "10",
  template_subject = "fsaverage",
  format = "mgh",
  create_dirs = TRUE,
  template_lh_numverts = NULL
)

Arguments

subjects_dir	string. The FreeSurfer SUBJECTS_DIR, i.e., a directory containing the data for all your subjects, each in a subdir named after the subject identifier.
subjects_list	vector of strings. The subject identifiers.
data	the data matrix
measure_name	character string, the data part of the generated file names, e.g., 'thickness' or 'area'.
hemi	string, one of 'lh', 'rh' or 'both'. The hemisphere name. Used to construct the names of the annotation and morphometry data files to be loaded.
fwhm	string. Smoothing as string, e.g. '10' or '25'.
template_subject	string. Template subject name, defaults to 'fsaverage'.
format	string. One of 'mgh', 'mgz', 'curv'. Defaults to 'mgh'.
create_dirs	logical, whether to create missing (sub) directories which occur in the 'filepaths'.
template_lh_numverts	positive integer, the vertex count of the left hemi of the template subject, only used if 'hemi' is 'both'. If hemi is both and this is unspecified (left at the default value NULL), the template subject needs to exist in the 'subjects_dir' to determine the vertex count of the left hemisphere, so that the data can be split into the lh and rh files at the correct index.

See Also

write.group.morph.standard.sf and write.group.morph.standard.mf

Examples

## Not run: 
dm = matrix(rnorm(325684 * 6, 5.0, 1.2), ncol = 6);
subjects = paste("subject", seq(6), sep="");
write.group.morph.standard("/tmp/groupdata", subjects, dm,
  "rand", template_lh_numverts = 325684 / 2);

## End(Not run)

dfsp-spirit/fsbrain documentation built on Nov. 28, 2024, 10:29 a.m.