readNIfTI | R Documentation |
These functions read in the header information and multidimensional array
from a binary file in NIfTI-1 format into a nifti
-class
object.
readNIfTI( fname, verbose = FALSE, warn = -1, reorient = TRUE, call = NULL, read_data = TRUE, rescale_data = TRUE ) nifti_header(fname, verbose = FALSE, warn = -1)
fname |
is the file name of the NIfTI file(s). |
verbose |
is a logical variable (default = |
warn |
is a number to regulate the display of warnings (default = -1).
See |
reorient |
is a logical variable (default = |
call |
keeps track of the current function call for use in the NIfTI extension. |
read_data |
Should the data be read in? If this is FALSE, then an array of NAs are given instead of the true data. Useful if you are simply interested in the header. |
rescale_data |
Should the data be rescaled using the slope and intercept values? If so, slope and intercept will be reset |
The readNIfTI
function utilizes internal methods readBin
and
readChar
to efficiently extract information from the binary file(s).
Current acceptable data types include
BINARY (1 bit per voxel)
SIGNED SHORT (16 bits per voxel)
SINGED INT (32 bits per voxel)
FLOAT (32 bits per voxel)
DOUBLE (64 bits per voxel)
UNSIGNED SHORT (16 bits per voxel)
UNSIGNED INT (32 bits per voxel)
An object of class nifti
.
Brandon Whitcher bwhitcher@gmail.com,
Volker Schmid
volkerschmid@users.sourceforge.net,
Andrew Thornton
zeripath@users.sourceforge.net
NIfTI-1
http://nifti.nimh.nih.gov/
readAFNI
, readANALYZE
## Not run: url <- "http://nifti.nimh.nih.gov/nifti-1/data/filtered_func_data.nii.gz" urlfile <- file.path(system.file("nifti", package="oro.nifti"), "filtered_func_data") download.file(url, urlfile, quiet=TRUE) ## End(Not run) ## The NIfTI file provided here contains the first 18 volumes (10%) ## of the original data set urlfile <- file.path(system.file("nifti", package="oro.nifti"), "filtered_func_data") (ffd <- readNIfTI(urlfile)) image(ffd, oma=rep(2,4)) orthographic(ffd, oma=rep(2,4)) ## Not run: ## 27 scans of Colin Holmes (MNI) brain co-registered and averaged ## NIfTI two-file format URL <- "http://imaging.mrc-cbu.cam.ac.uk/downloads/Colin/colin_1mm.tgz" urlfile <- file.path(tempdir(), "colin_1mm.tgz") download.file(URL, dest=urlfile, quiet=TRUE) untar(urlfile, exdir=tempdir()) colin <- readNIfTI(file.path(tempdir(), "colin_1mm")) image(colin, oma=rep(2,4)) orthographic(colin, oma=rep(2,4)) ## End(Not run)
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.