RAVEL intensity normalization

Source: R/normalizeRAVEL.R

RAVEL intensity normalization.

normalizeRAVEL(input.files, output.files = NULL, brain.mask = NULL,
  control.mask = NULL, WhiteStripe = TRUE, WhiteStripe_Type = c("T1",
  "T2", "FLAIR"), k = 1, returnMatrix = TRUE, writeToDisk = FALSE,
  verbose = TRUE, ...)

Arguments

input.files

Vector of filenames for the input images. Must be NIfTI files.
output.files

Optional vector of filenames for the output images. By default, will be the input.files with suffix "RAVEL".
brain.mask

Filename for the brain binary mask specifying the template space brain. Must be a NIfTI file.
control.mask

Filename for the control region binary mask to be used in RAVEL. Must be a NIfTI file.
WhiteStripe

Should White Stripe intensity normalization be performed prior to RAVEL?.
WhiteStripe_Type

What modality is used for WhiteStripe? Should be one of T1, T2 or FLAIR.
k

Number of unwanted factors to be included in the RAVEL model.
returnMatrix

Should the matrix of normalized intensities be returned?
writeToDisk

Should the normalized images be saved to disk?
verbose

Should messages be printed?
...

additional arguments to pass to whitestripe

Value

if returnMatrix is FALSE, no value returned, but RAVEL-corrected images are saved. If returnMatrix is TRUE, RAVEL-corrected images are saved and a matrix of normalized intensities is returned.

Author

Jean-Philippe Fortin