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\name{plot.scanoneperm}
\alias{plot.scanoneperm}
\title{Plot permutation results for a single-QTL genome scan}
\description{
Plot a histogram of the permutation results from a single-QTL genome
scan.
}
\usage{
\method{plot}{scanoneperm}(x, lodcolumn=1, \dots)
}
\arguments{
\item{x}{An object of class \code{"scanoneperm"}, as output by
\code{\link[qtl]{scanone}} when \code{n.perm} is specified.}
\item{lodcolumn}{This indicates the LOD score column to plot. This
should be a single number between 1 and the number of LOD columns in
the object input.}
\item{\dots}{Passed to the function \code{\link[graphics]{hist}} when it
is called.}
}
\value{None.}
\details{
The function plots a histogram of the permutation results obtained by
\code{\link[qtl]{scanone}} when \code{n.perm} is specified. If
separate permutations were performed for the autosomes and the X
chromosome (using \code{perm.Xsp=TRUE}), separate histograms are given.
}
\examples{
data(fake.bc)
fake.bc <- calc.genoprob(fake.bc)
operm <- scanone(fake.bc, method="hk", n.perm=100)
plot(operm)
}
\seealso{ \code{\link[qtl]{scanone}},
\code{\link[qtl]{summary.scanoneperm}} }
\author{Karl W Broman, \email{kbroman@biostat.wisc.edu} }
\keyword{hplot}
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