fslbet

infile

outfile

retimg

(logical) If retimg, should file be reoriented when read in?
Passed to <code><a rd-options="" href="/link/readnii?package=fslr&version=1.9.2.1" data-mini-rdoc="fslr::readnii">readnii</a></code>.

reorient

(logical) pass to <code><a rd-options="" href="/link/system?package=fslr&version=1.9.2.1" data-mini-rdoc="fslr::system">system</a></code>

intern

(character) additional options to <code>bet</code>

opts

(character) Use <code>bet</code> or <code>bet2</code> function

betcmd

(logical) print out command before running

verbose

additional arguments passed to <code><a rd-options="" href="/link/readnii?package=fslr&version=1.9.2.1" data-mini-rdoc="fslr::readnii">readnii</a></code>.


This function calls <code>bet</code> to extract a brain 
from an image, usually for skull stripping.


Wrapper functions that interface with 'FSL' (http://
fsl.fmrib.ox.ac.uk/fsl/fslwiki/), a powerful and commonly-used 'neuroimaging'
software, using system commands. The goal is to be able to interface with 'FSL'
completely in R, where you pass R objects of class 'nifti', implemented by
package 'oro.nifti', and the function executes an 'FSL' command and returns an R
object of class 'nifti' if desired.

John Muschelli

fslr

Wrapper Functions for FSL ('FMRIB' Software Library) from
Functional MRI of the Brain ('FMRIB')

fslbet function

(logical) If retimg, should file be reoriented when read in?
Passed to <code><a rd-options='' href='readnii'>readnii</a></code>.

(logical) pass to <code><a rd-options='' href='system'>system</a></code>

additional arguments passed to <code><a rd-options='' href='readnii'>readnii</a></code>.

fslbet: Use FSL's Brain Extraction Tool (BET)

Description

Usage

Arguments

Value