\HeaderA{plotCytoband}{Plots idiogram for one chromosome}{plotCytoband}
\keyword{aplot}{plotCytoband}
\begin{Description}\relax
Adds cytobands to views of chromosome copy number and
genotype plots.
\end{Description}
\begin{Usage}
\begin{verbatim}
plotCytoband(chromosome, cytoband, cytoband.ycoords, xlim, ylim=c(0, 2),
new=TRUE, label.cytoband=TRUE, label.y=NULL, srt, cex.axis=1,
outer=FALSE, taper=0.15, verbose=FALSE, build="hg18", ...)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{chromosome}] character string or integer: which chromosome to draw the
cytoband
\item[\code{cytoband}] data.frame containing cytoband information
\item[\code{cytoband.ycoords}] numeric: y coordinates 
\item[\code{xlim}] x-axis limits
\item[\code{ylim}] y-axis limits
\item[\code{new}] logical: new plotting device
\item[\code{label.cytoband}] logical: if TRUE, labels the cytobands
\item[\code{label.y}] numeric: height (y-coordinate) for cytoband label
\item[\code{srt}] string rotation for cytoband labels.  See \code{par}
\item[\code{cex.axis}] size of cytoband labels. See par
\item[\code{outer}] logical: whether to draw the labels in the outer
margins. See par
\item[\code{taper}] tapering for the ends of the cytoband
\item[\code{verbose}] Logical.  If TRUE, displays human genome build used to
annotated the cytoband coordinates.
\item[\code{build}] Character string.  Currently only "hg18" is allowed.
\item[\code{...}] additional arguments to plot
\end{ldescription}
\end{Arguments}
\begin{Author}\relax
Robert Scharpf and Jason Ting
\end{Author}
\begin{SeeAlso}\relax
\code{\LinkA{plotSnp}{plotSnp}}, \code{\LinkA{cytoband}{cytoband}}
\end{SeeAlso}
\begin{Examples}
\begin{ExampleCode}
plotCytoband("1")
\end{ExampleCode}
\end{Examples}

