callplot-methods

callplot

object of class <code><a rd-options="" href="/link/CallTreeSet?package=xps&version=1.32.0" data-mini-rdoc="xps::CallTreeSet">CallTreeSet</a></code>.

logical. If <code>FALSE</code>, the columns of height are portrayed as stacked bars,
 and if <code>TRUE</code> the columns are portrayed as juxtaposed bars.

beside

names

legend

ylim

ylab

optional arguments to be passed to <code>barplot</code>.

Creates a barplot of percent Present/Marginal/Absent calls.Usage<code>
callplot(x,
 beside = TRUE,
 names = "namepart",
 col = c("red","green","blue"),
 legend = c("P","M","A"),
 ylim = c(0,100),
 ylab = "detection call [%]",
 las = 2,
 ...)
</code>

methods

The package handles pre-processing, normalization, filtering
and analysis of Affymetrix GeneChip expression arrays, including exon
arrays (Exon 1.0 ST: core, extended, full probesets), gene arrays (Gene 1.0 ST)
and plate arrays on computers with 1 GB RAM only. It imports Affymetrix
.CDF, .CLF, .PGF and .CEL as well as annotation files, and computes e.g. RMA,
MAS5, FARMS, DFW, FIRMA, tRMA, MAS5-calls, DABG-calls, I/NI-calls. It is an R wrapper to
XPS (eXpression Profiling System), which is based on ROOT, an object-oriented
framework developed at CERN. Thus, the prior installation of ROOT is a prerequisite
for the usage of this package, however, no knowledge of ROOT is required.
ROOT is licensed under LGPL and can be downloaded from http://root.cern.ch.

Christian Stratowa

Processing and Analysis of Affymetrix Oligonucleotide Arrays
including Exon Arrays, Whole Genome Arrays and Plate Arrays

callplot-methods function

object of class <code><a rd-options='' href='CallTreeSet'>CallTreeSet</a></code>.

Creates a barplot of percent Present/Marginal/Absent calls.

Usage

<code>
callplot(x,
 beside = TRUE,
 names = "namepart",
 col = c("red","green","blue"),
 legend = c("P","M","A"),
 ylim = c(0,100),
 ylab = "detection call [%]",
 las = 2,
 ...)
</code>

callplot-methods: Barplot of Percent Present and Absent Calls.

Description

Arguments

Details

See Also