EVOLUTION-MANAGER
Edit File: plot.cross.html
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd"><html xmlns="http://www.w3.org/1999/xhtml"><head><title>R: Plot various features of a cross object</title> <meta http-equiv="Content-Type" content="text/html; charset=utf-8" /> <link rel="stylesheet" type="text/css" href="R.css" /> </head><body> <table width="100%" summary="page for plot.cross {qtl}"><tr><td>plot.cross {qtl}</td><td style="text-align: right;">R Documentation</td></tr></table> <h2>Plot various features of a cross object</h2> <h3>Description</h3> <p>Plots grid of the missing genotypes, genetic map, and histograms or barplots of phenotypes for the data from an experimental cross. </p> <h3>Usage</h3> <pre> ## S3 method for class 'cross' plot(x, auto.layout=TRUE, pheno.col, alternate.chrid=TRUE, ...) </pre> <h3>Arguments</h3> <table summary="R argblock"> <tr valign="top"><td><code>x</code></td> <td> <p>An object of class <code>cross</code>. See <code><a href="read.cross.html">read.cross</a></code> for details.</p> </td></tr> <tr valign="top"><td><code>auto.layout</code></td> <td> <p>If TRUE, <code>par(mfrow)</code> is set so that all plots fit within one figure.</p> </td></tr> <tr valign="top"><td><code>pheno.col</code></td> <td> <p>Vector of numbers or character strings corresponding to phenotypes that should be plotted. If unspecified, all phenotypes are plotted.</p> </td></tr> <tr valign="top"><td><code>alternate.chrid</code></td> <td> <p>If TRUE and more than one chromosome is plotted, alternate the placement of chromosome axis labels, so that they may be more easily distinguished.</p> </td></tr> <tr valign="top"><td><code>...</code></td> <td> <p>Ignored at this point.</p> </td></tr> </table> <h3>Details</h3> <p>Calls <code><a href="plot.missing.html">plotMissing</a></code>, <code><a href="plot.map.html">plotMap</a></code> and <code><a href="plot.pheno.html">plotPheno</a></code> to plot the missing genotypes, genetic map, and histograms or barplots of all phenotypes. </p> <p>If <code>auto.format=TRUE</code>, <code>par(mfrow)</code> is used with <code>ceiling(sqrt(n.phe+2))</code> rows and the minimum number of columns so that all plots fit on the plotting device. </p> <p>Numeric phenotypes are displayed as histograms or barplots by calling <code><a href="plot.pheno.html">plotPheno</a></code>. </p> <h3>Value</h3> <p>None.</p> <h3>Author(s)</h3> <p>Karl W Broman, <a href="mailto:broman@wisc.edu">broman@wisc.edu</a>; Brian Yandell </p> <h3>See Also</h3> <p><code><a href="plot.missing.html">plotMissing</a></code>, <code><a href="plot.map.html">plotMap</a></code>, <code><a href="plot.pheno.html">plotPheno</a></code> </p> <h3>Examples</h3> <pre> data(fake.bc) plot(fake.bc) </pre> <hr /><div style="text-align: center;">[Package <em>qtl</em> version 1.46-2 <a href="00Index.html">Index</a>]</div> </body></html>