getUnitIntensities.AffymetrixCelSet

AffymetrixCelSet.getUnitIntensities

getUnitIntensities,AffymetrixCelSet-method

Gets cell signals for a subset of units and a subset of arrays.

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

getUnitIntensities.AffymetrixCelSet function

<dl> <dt>units</dt>
<dd>An <code><a href="/link/integer?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::integer">integer</a></code> index <code><a href="/link/vector?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::vector">vector</a></code> specifying 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>Arguments passed to the low-level function for reading
 CEL units, i.e. <code>readCelUnits</code>.
 If <code>units</code> is not already a CDF <code><a href="/link/list?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::list">list</a></code> structure, these arguments
 are also passed to <code>readUnits()</code> of <code>AffymetrixCdfFile</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 values are ignored.</dd> <dt>verbose</dt>
<dd>If <code><a href="/link/TRUE?package=aroma.affymetrix&version=3.2.2" data-mini-rdoc="aroma.affymetrix::TRUE">TRUE</a></code>, progress details are printed, otherwise not.
 May also be a <code>Verbose</code> object.</dd></dl>

Arguments

Author

Gets cell signals for a subset of units and a subset of arrays — getUnitIntensities.AffymetrixCelSet

<dl>

 <dt>units</dt>
<dd>An <code><a href='https://rdrr.io/r/base/integer.html'>integer</a></code> index <code><a href='https://rdrr.io/r/base/vector.html'>vector</a></code> specifying 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>Arguments passed to the low-level function for reading
 CEL units, i.e. <code>readCelUnits</code>.
 If <code>units</code> is not already a CDF <code><a href='https://rdrr.io/r/base/list.html'>list</a></code> structure, these arguments
 are also passed to <code>readUnits()</code> of <code>AffymetrixCdfFile</code>.</dd>

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

 <dt>verbose</dt>
<dd>If <code><a href='https://rdrr.io/r/base/logical.html'>TRUE</a></code>, progress details are printed, otherwise not.
 May also be a <code>Verbose</code> object.</dd>

</dl>

Gets cell signals for a subset of units and a subset of arrays

getUnitIntensities.AffymetrixCelSet: Gets cell signals for a subset of units and a subset of arrays

Description

Usage

Value

Arguments

Author

See Also