read.NIFTI {fmri}

I/O Functions

Description

Read fMRI data from NIFTI file(s).

Usage

read.NIFTI(filename, level = 0.75, mask=NULL, setmask=TRUE)

Arguments

filename

name of the NIfTI file

level

Quantile level defining the mask

mask

array or nifti-object containing the mask. If set this replaces the mask defined by argument level.

setmask

Logical (default TRUE), whether to define a suitable mask based on level

Details

This function reads fMRI data files in NIfTI format.

The filename can be given with or without extension. If extension is not included, the function searches for the ".nii" file and then for the "hdr/img" pair.

Value

Object of class "fmridata" with the following list entries:

ttt

raw vector (numeric size 4) containing the four dimensional data cube (the first three dimensions are voxel dimensions, the fourth dimension denotes the time).

header

header information of the data

format

data source. string "NIFTI"

delta

voxel size in mm

origin

position of the datacube origin

orient

data orientation code

dim

dimension of the datacube

weights

weights vector coding the relative voxel sizes in x, y, z-direction

mask

head mask

Author(s)

Karsten Tabelow [e-mail]

References

Polzehl, J. and Tabelow, K. (2007) fmri: A Package for Analyzing fmri Data, R News, 7:13-17 .

See Also

read.ANALYZE, read.AFNI

Examples

 ## Not run: analyze <- read.NIFTI("niftifile.nii")