Create fmridata object from niftiImage

Transforms a niftiImage (created by readNifti from package RNiftyReg) into an object with class fmridata

niftiImage2fmri(niftiobj, level = 0.75, mask=NULL, setmask = TRUE, indx = NULL,
   indy = NULL, indz = NULL, avoidnegs = FALSE)

Arguments

niftiobj	an object of class niftiImage
level	quantile used in mask definition
mask	array or nifti-object containing the mask. If set this replaces the mask defined by argument level.
setmask	if TRUE create a brain mask
indx	index vector for subcube definition
indy	index vector for subcube definition
indz	index vector for subcube definition
avoidnegs	if TRUE change the mean to avoid negative image intensities

Details

This function can be used in connection with readNifti from package RNiftyReg to read large fMRI series from nifti files. The resulting fmridata-object stores the image data as 2 byte integer in raw format, in contrast for the 4 byte real used with other functions.

Value

an object of class fmridata

Author

Joerg Polzehl polzehl@wias-berlin.de

See also

read.AFNI, read.DICOM, read.ANALYZE, read.NIFTI