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\name{read.rmskFasta}
\alias{read.rmskFasta}
\title{
Read a soft repeat masked fasta
}
\description{
Read a soft repeat masked fasta file into a \code{GRanges} object.
}
\usage{
read.rmskFasta(fn)
}
\arguments{
\item{fn}{
\code{character}(1): The filename of the soft repeat masked fasta.
}
}
\details{
Only the lower case based ("a", "c", "g", "t") are considered in the
soft repeat masked fasta.
}
\value{
\code{GRanges} object with coordinates of repeat masked regions.
}
\author{
Ge Tan
}
\seealso{
\code{\link{read.rmMask.GRanges}}
}
\examples{
fn <- file.path(system.file("extdata", package="CNEr"),
"rmsk.fa")
read.rmskFasta(fn)
}
|
