isPm.AffymetrixCdfFile

AffymetrixCdfFile.isPm

isPm,AffymetrixCdfFile-method

Checks which cells (probes) are PMs and not.

methods

internal

A cross-platform R framework that facilitates processing of any number of Affymetrix microarray samples regardless of computer system.  The only parameter that limits the number of chips that can be processed is the amount of available disk space.  The Aroma Framework has successfully been used in studies to process tens of thousands of arrays.  This package has actively been used since 2006.

Henrik Bengtsson

aroma.affymetrix

Analysis of Large Affymetrix Microarray Data Sets

James Bullard

Kasper Hansen

Pierre Neuvial

Elizabeth Purdom

Mark Robinson

Ken Simpson

isPm.AffymetrixCdfFile function

<dl> <dt>units</dt>
<dd>The units to be read. If <code><a href="/link/NULL?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::NULL">NULL</a></code>, all units are read.</dd> <dt>...</dt>
<dd>Additional arguments passed to <code>readCdfUnits</code>.</dd> <dt>force</dt>
<dd>If <code><a href="/link/TRUE?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::TRUE">TRUE</a></code>, cached results are ignored.</dd> <dt>cache</dt>
<dd>If <code><a href="/link/TRUE?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::TRUE">TRUE</a></code>, results are cached.</dd> <dt>verbose</dt>
<dd>A <code><a href="/link/logical?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::logical">logical</a></code> or <code>Verbose</code>.</dd></dl>

Arguments

This method caches a <code><a href="/link/logical?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::logical">logical</a></code> <code><a href="/link/vector?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::vector">vector</a></code> of length N, when N equals the
 number of cells on the array. The size of this vector is approximately
 4*N bytes. The vector indicates if a cell is a PM or not.

Caching

Checks which cells (probes) are PMs and not — isPm.AffymetrixCdfFile

<dl>

 <dt>units</dt>
<dd>The units to be read. If <code><a href='https://rdrr.io/r/base/NULL.html'>NULL</a></code>, all units are read.</dd>

 <dt>...</dt>
<dd>Additional arguments passed to <code>readCdfUnits</code>.</dd>

 <dt>force</dt>
<dd>If <code><a href='https://rdrr.io/r/base/logical.html'>TRUE</a></code>, cached results are ignored.</dd>

 <dt>cache</dt>
<dd>If <code><a href='https://rdrr.io/r/base/logical.html'>TRUE</a></code>, results are cached.</dd>

 <dt>verbose</dt>
<dd>A <code><a href='https://rdrr.io/r/base/logical.html'>logical</a></code> or <code>Verbose</code>.</dd>

</dl>

This method caches a <code><a href='https://rdrr.io/r/base/logical.html'>logical</a></code> <code><a href='https://rdrr.io/r/base/vector.html'>vector</a></code> of length N, when N equals the
 number of cells on the array. The size of this vector is approximately
 4*N bytes. The vector indicates if a cell is a PM or not.

isPm.AffymetrixCdfFile: Checks which cells (probes) are PMs and not

Description

Usage

Value

Arguments

Caching

See Also