root.browser

an object of type <code><a rd-options="" href="/link/SchemeTreeSet?package=xps&version=1.32.0" data-mini-rdoc="xps::SchemeTreeSet">SchemeTreeSet</a></code>, <code><a rd-options="" href="/link/DataTreeSet?package=xps&version=1.32.0" data-mini-rdoc="xps::DataTreeSet">DataTreeSet</a></code>,
  <code><a rd-options="" href="/link/ExprTreeSet?package=xps&version=1.32.0" data-mini-rdoc="xps::ExprTreeSet">ExprTreeSet</a></code>, or <code><a rd-options="" href="/link/CallTreeSet?package=xps&version=1.32.0" data-mini-rdoc="xps::CallTreeSet">CallTreeSet</a></code>

object


Open the <code><a rd-options="" href="/link/ROOT?package=xps&version=1.32.0" data-mini-rdoc="xps::ROOT">ROOT</a></code> object browser to see all objects stored in a <code><a rd-options="" href="/link/ROOT?package=xps&version=1.32.0" data-mini-rdoc="xps::ROOT">ROOT</a></code> 
file including <code><a rd-options="" href="/link/ROOT?package=xps&version=1.32.0" data-mini-rdoc="xps::ROOT">ROOT</a></code> trees.


methods

root.browser-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

root.browser-methods function

an object of type <code><a rd-options='' href='SchemeTreeSet'>SchemeTreeSet</a></code>, <code><a rd-options='' href='DataTreeSet'>DataTreeSet</a></code>,
  <code><a rd-options='' href='ExprTreeSet'>ExprTreeSet</a></code>, or <code><a rd-options='' href='CallTreeSet'>CallTreeSet</a></code>


Open the <code><a rd-options='' href='ROOT'>ROOT</a></code> object browser to see all objects stored in a <code><a rd-options='' href='ROOT'>ROOT</a></code> 
file including <code><a rd-options='' href='ROOT'>ROOT</a></code> trees.


root.browser-methods: Open the ROOT object browser

Description

Usage

Arguments