readAFNI

These functions read in the header information and multidimensional array from a binary file in AFNI format into a afni-class object.

readAFNI(fname, vol = NULL, verbose = FALSE, warn = -1, call = NULL)

Arguments

fname	is the file name of the AFNI file.
vol	vector of brick numbers to be read from file.
verbose	is a logical variable (default = FALSE) that allows text-based feedback during execution of the function.
warn	is a number to regulate the display of warnings (default = -1). See options for more details.
call	keeps track of the current function call for use in the AFNI extension.

Value

object of class afni

Details

The readAFNI function utilizes internal methods readBin and readLines to efficiently extract information from the header and binary file(s). Compression is allowed on the BRIK file using gzip.

Current acceptable data types include

list("INT16")

DT SIGNED SHORT (16 bits per voxel)

list("FLOAT32")

DT FLOAT (32 bits per voxel)

list("COMPLEX128")

DT COMPLEX (128 bits per voxel)

References

AFNI
http://afni.nimh.nih.gov/pub/dist/src/README.attributes

See also

readANALYZE, readNIfTI

Author

Karsten Tabelow karsten.tabelow@wias-berlin.de

Examples

if (FALSE) {
## Taken from the AFNI Matlab Library
## http://afni.nimh.nih.gov/pub/dist/data/afni_matlab_data.tgz
afni.path <- system.file("afni", package="oro.nifti")
orig <- readAFNI(file.path(afni.path, "ARzs_CW_avvr.DEL+orig"))
image(orig, zlim=c(0.5,256), oma=rep(2,4))
orthographic(orig, zlim=c(0.5,256), oma=rep(2,4))
## Taken from the AFNI installation
TT <- readAFNI(file.path(afni.path, "TT_N27_EZ_LR+tlrc"))
image(TT, zlim=c(0.5,256), oma=rep(2,4))
orthographic(TT, zlim=c(0.5,256), oma=rep(2,4))
}