% Generated by roxygen2: do not edit by hand

% Please edit documentation in R/dil_ero.R

\name{dil_ero}

\alias{dil_ero}

\title{Fill image holes with dilation then erosion}

\usage{

dil_ero(

  file,

  outfile = NULL,

  nvoxels = 3,

  zeropad = TRUE,

  remove.ends = FALSE,

  tol = .Machine$double.eps^0.5,

  refill = TRUE,

  retimg = FALSE,

  reorient = FALSE,

  intern = TRUE,

  verbose = TRUE,

  ...

)

}

\arguments{

\item{file}{(character) filename of image to be filled}

\item{outfile}{(character) name of resultant filled file}

\item{nvoxels}{(integer) Number of voxels to smooth over, creates vxvxv box.}

\item{zeropad}{(logical) Perform \code{zero_pad} before running.}

\item{remove.ends}{(logical) Remove top and bottom dilation.}

\item{tol}{(double) Tolerance for thresholding after \code{\link{fft}}.}

\item{refill}{(logical) Run \code{\link{fslfill}} after dilation/erosion.}

\item{retimg}{(logical) return image of class nifti}

\item{reorient}{(logical) If retimg, should file be reoriented when read in?

Passed to \code{\link{readNIfTI}}.}

\item{intern}{(logical) pass to \code{\link{system}}}

\item{verbose}{(logical) print out command before running}

\item{...}{additional arguments passed to \code{\link{readNIfTI}}.}

}

\value{

character or logical depending on intern

}

\description{

This function calls \code{mean_image} to dilate an image, then calls

it again to erode it.

}

\note{

This function binarizes the image before running.

}