fslfill2

(character) filename of image to be filled

file

(character) name of resultant filled file

outfile

(character) Options passed for kernel before erosion/dilation

kopts

(logical) Remove top and bottom dilation.

remove.ends

(logical) Run <code><a rd-options="" href="/link/fslfill?package=fslr&version=1.9.2.1" data-mini-rdoc="fslr::fslfill">fslfill</a></code> after dilation/erosion.

refill

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

(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>fslmaths</code> to dilate an image, then calls
it again to erode it.


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')

fslfill2 function

(logical) Run <code><a rd-options='' href='fslfill'>fslfill</a></code> after dilation/erosion.

(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>.

fslfill2: Fill image holes with dilation then erosion

Description

Usage

Arguments

Value