updateApd.default

updateApd

Updates an Affymetrix probe data (APD) file.

file

DEPRECATED. Do not start building new projects based on this package. (The (in-house) APD file format was initially developed to store Affymetrix probe-level data, e.g. normalized CEL intensities.  Chip types can be added to APD file and similar to methods in the affxparser package, this package provides methods to read APDs organized by units (probesets).  In addition, the probe elements can be arranged optimally such that the elements are guaranteed to be read in order when, for instance, data is read unit by unit.  This speeds up the read substantially.  This package is supporting the Aroma framework and should not be used elsewhere.)

Henrik Bengtsson

aroma.apd

A Probe-Level Data File Format Used by 'aroma.affymetrix'
[deprecated]

updateApd function

<dl> <dt>filename</dt>
<dd>The filename of the APD file.</dd> <dt>indices</dt>
<dd>A <code><a href="/link/numeric?package=aroma.apd&version=0.7.1" data-mini-rdoc="aroma.apd::numeric">numeric</a></code> <code><a href="/link/vector?package=aroma.apd&version=0.7.1" data-mini-rdoc="aroma.apd::vector">vector</a></code> of cell (probe) indices specifying
 which cells to updated.</dd> <dt>data</dt>
<dd>A <code><a href="/link/numeric?package=aroma.apd&version=0.7.1" data-mini-rdoc="aroma.apd::numeric">numeric</a></code> <code><a href="/link/vector?package=aroma.apd&version=0.7.1" data-mini-rdoc="aroma.apd::vector">vector</a></code> of data elements to be assigned.</dd> <dt>writeMap</dt>
<dd>A <code><a href="/link/vector?package=aroma.apd&version=0.7.1" data-mini-rdoc="aroma.apd::vector">vector</a></code> of indicies used to change the order how
 data elements are written (by default).</dd> <dt>...</dt>
<dd>Not used.</dd> <dt>verbose</dt>
<dd>See <code>Verbose</code>.</dd> <dt>.checkArgs</dt>
<dd>If <code><a href="/link/TRUE?package=aroma.apd&version=0.7.1" data-mini-rdoc="aroma.apd::TRUE">TRUE</a></code>, arguments are checked, otherwise not.</dd></dl>

Arguments

Author

Updates an Affymetrix probe data (APD) file — updateApd

<dl>

 <dt>filename</dt>
<dd>The filename of the APD file.</dd>

 <dt>indices</dt>
<dd>A <code><a href='https://rdrr.io/r/base/numeric.html'>numeric</a></code> <code><a href='https://rdrr.io/r/base/vector.html'>vector</a></code> of cell (probe) indices specifying
 which cells to updated.</dd>

 <dt>data</dt>
<dd>A <code><a href='https://rdrr.io/r/base/numeric.html'>numeric</a></code> <code><a href='https://rdrr.io/r/base/vector.html'>vector</a></code> of data elements to be assigned.</dd>

 <dt>writeMap</dt>
<dd>A <code><a href='https://rdrr.io/r/base/vector.html'>vector</a></code> of indicies used to change the order how
 data elements are written (by default).</dd>

 <dt>...</dt>
<dd>Not used.</dd>

 <dt>verbose</dt>
<dd>See <code>Verbose</code>.</dd>

 <dt>.checkArgs</dt>
<dd>If <code><a href='https://rdrr.io/r/base/logical.html'>TRUE</a></code>, arguments are checked, otherwise not.</dd>

</dl>

updateApd: Updates an Affymetrix probe data (APD) file

Description

Usage

Value

Arguments

Author

See Also