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\name{makeAncoraFiles}
\alias{makeAncoraFiles}
\title{
makeAncoraFiles
}
\description{
Make ancora format files from \code{GRangePairs} of CNE
}
\usage{
makeAncoraFiles(cne, outputDir = ".",
genomeFirst = "first", genomeSecond = "second",
threshold = "50_50")
}
\arguments{
\item{cne}{
\code{GRangePairs} object of CNE.
}
\item{outputDir}{
\code{character}(1): the output directory of
\sQuote{Bed} and \sQuote{BigWig} files.
}
\item{genomeFirst,genomeSecond}{
\code{character}(1): the genome name of the first and second species.
}
\item{threshold}{
\code{character}(1): the threshold used to identify the CNEs
in the format of "50_50" etc
}
}
\value{
The filenames of output.
}
\author{
Ge Tan
}
\note{
This function is mainly for internal use in Lenhard group.
}
\seealso{
\code{\link{readAncora}}
}
\examples{
data(cneFinalListDanRer10Hg38)
cne <- CNEFinal(cneFinalListDanRer10Hg38[["45_50"]])
makeAncoraFiles(cne, genomeFirst = "danRer10", genomeSecond = "hg38",
threshold = "45_50")
}
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