niftiImage2fmri: Create fmridata object from niftiImage

Description Usage Arguments Details Value Author(s) See Also

View source: R/misc.r

Description

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

Usage

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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(s)

Joerg Polzehl polzehl@wias-berlin.de

See Also

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


neuroconductor/fmri documentation built on May 20, 2021, 4:28 p.m.