R: Plot standard space morphometry data for a group of subjects.

vis.group.morph.standard {fsbrain}

R Documentation

Plot standard space morphometry data for a group of subjects.

Description

Plot standard space morphometry data for a group of subjects and combine them into a single large image.

Usage

vis.group.morph.standard(
  subjects_dir,
  subject_id,
  measure,
  fwhm = "10",
  view_angles = "sd_dorsal",
  output_img = "fsbrain_group_morph.png",
  num_per_row = 5L,
  captions = subject_id,
  rglactions = list(no_vis = TRUE),
  ...
)

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.
`subject_id`	vector of character strings, the subject identifiers
`measure`	vector of character strings, the morphometry measures, e.g., `c('thickness', 'area')`
`fwhm`	vector of character strings, the smoothing kernel FWHM strings, e.g., `c('0', '10', '15')`
`view_angles`	see `get.view.angle.names`.
`output_img`	character string, the file path for the output image. Should end with '.png'.
`num_per_row`	positive integer, the number of tiles per row.
`captions`	optional vector of character strings, the short text annotations for the individual tiles. Typically used to plot the subject identifier.
`rglactions`	named list. A list in which the names are from a set of pre-defined actions. The values can be used to specify parameters for the action. The following example clips outliers in the data before plotting and writes a screenshot in PNG format: `rglactions = list("snapshot_png"="~/fsbrain.png", "clip_data"=c(0.05, 0.95))`. See `rglactions`.
`...`	extra parameters passed to the subject level visualization function. Not all may make sense in this context. Example: `surface='pial'`.

Value

named list, see the return value of arrange.brainview.images.grid for details.

Note

The subjects are plotted row-wise, in the order in which they appear in the 'subject_id' parameter. This function is vectorized over 'subject_id', 'measure' and 'fwhm'.