plotDensity.GenomeInformation

GenomeInformation.plotDensity

plotDensity,GenomeInformation-method

chromosome

Additional arguments passed to <code><a href="/link/*getPositions?package=aroma.affymetrix&version=2.5.0&to=aroma.affymetrix%3AgetPositions.GenomeInformation" rd-options="aroma.affymetrix:getPositions.GenomeInformation" data-mini-rdoc="aroma.affymetrix:getPositions.GenomeInformation::*getPositions">*getPositions</a>()</code>.

A bandwidth parameter for the density estimator.

adjust

The label on the x-axis.  If <code><a href="/link/NULL?package=aroma.affymetrix&version=2.5.0&to=base" rd-options="base" data-mini-rdoc="base::NULL">NULL</a></code>, a default will generated.

xlab

The title of the plot.  If <code><a href="/link/NULL?package=aroma.affymetrix&version=2.5.0&to=base" rd-options="base" data-mini-rdoc="base::NULL">NULL</a></code>, a default will generated.

main

If <code><a href="/link/TRUE?package=aroma.affymetrix&version=2.5.0&to=base%3Alogical" rd-options="base:logical" data-mini-rdoc="base:logical::TRUE">TRUE</a></code>, the plot is annotated with extra information.

annotate

Plots the density of SNPs for a given chromosome.

methods

internal

This package implements classes for files and sets of
        files for various Affymetrix file formats, e.g.
        AffymetrixCdfFile, AffymetrixCelFile, and AffymetrixCelSet.
        These are designed to be memory efficient but still being fast.
        The idea is to keep all data on file and only read data into
        memory when needed.  Clever caching mechanisms are used to
        minimize the overhead of data IO.  All of the above is hidden
        in the package API and for the developer (and the end user),
        the data is queried as if it lives in memory.  With this design
        it is only the diskspace that limits the number of arrays that
        can be analyzed.  To install, do:
        source("http://www.aroma-project.org/hbLite.R");
        hbInstall("aroma.affymetrix").

plotDensity.GenomeInformation: Plots the density of SNPs for a given chromosome

Description

Usage

Arguments

Value

See Also