read.AFNI: I/O function

In neuroconductor/fmri: Analysis of fMRI Experiments

Description

Read HEAD/BRIK file.

Usage

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

Arguments

filename	name of the file (without extension)
vol	vector of volumes of the dataset to be read
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

The function reads a HEAD/BRIK file. If vol is given (defaults to NULL), only volumes in this vector are read, in order to save memory.

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 list
format	data source. string "HEAD/BRIK"
delta	voxel size in mm
origin	position of the datacube origin
orient	data orientation code. see AFNI documentation
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

R. W. Cox (1996). AFNI: Software for analysis and visualization of functional magnetic resonance neuroimages. Computers and Biomed. Res. 29:162-173.

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

See Also

write.AFNI, read.ANALYZE

Examples

## Not run: afni <- read.AFNI("afnifile")

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