read.AFNI: I/O function

Description

Read HEAD/BRIK file.

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

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

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

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.

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 .

if (FALSE) afni <- read.AFNI("afnifile")

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