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\name{read.rmMask.GRanges}
\alias{read.rmMask.GRanges}
\title{
Read a RepeatMasker .out file
}
\description{
Read a RepeatMasker .out file into a \code{GRanges} object.
}
\usage{
read.rmMask.GRanges(fn)
}
\arguments{
\item{fn}{
\code{character}(1): the filename of a RepeatMasker .out file.
}
}
\value{
A \code{GRanges} object with metadata columns containing the
name of the matching interspersed repeat,
the class of the repeat and the Smith-Waterman score of the match.
}
\references{
\url{http://www.repeatmasker.org/webrepeatmaskerhelp.html}
}
\author{
Ge Tan
}
\examples{
fn <- system.file("extdata", "ce2chrM.fa.out", package="IRanges")
read.rmMask.GRanges(fn)
}
|
