updateMeansTogether.AbstractCBS

AbstractCBS.updateMeansTogether

updateMeansTogether,AbstractCBS-method

updateMeansTogether.CBS

updateMeansTogether.PairedPSCBS

A <code><a rd-options="base" href="/link/list?package=PSCBS&version=0.66.0&to=base" data-mini-rdoc="base::list">list</a></code>, where each element is an <code><a rd-options="base" href="/link/integer?package=PSCBS&version=0.66.0&to=base" data-mini-rdoc="base::integer">integer</a></code> <code><a rd-options="base" href="/link/vector?package=PSCBS&version=0.66.0&to=base" data-mini-rdoc="base::vector">vector</a></code>
 specifying segment indices of segments for which the mean levels
 should be calculated jointly.

idxList

See <code><a rd-options="R.utils" href="/link/Verbose?package=PSCBS&version=0.66.0&to=R.utils" data-mini-rdoc="R.utils::Verbose">Verbose</a></code>.

verbose

Updates the CN mean levels jointly in sets of segments as if they were one large segment.
 The locus-level data is not updated/modified.

methods

internal

Segmentation of allele-specific DNA copy number data and detection of regions with abnormal copy number within each parental chromosome.  Both tumor-normal paired and tumor-only analyses are supported.

Henrik Bengtsson

PSCBS

Analysis of Parent-Specific DNA Copy Numbers

Pierre Neuvial

Venkatraman E. Seshan

Adam B. Olshen

Paul T. Spellman

Richard A. Olshen

Frank E Harrell Jr

updateMeansTogether.AbstractCBS function

<dl> <dt>idxList</dt>
<dd>A <code><a href="/link/list?package=PSCBS&version=0.66.0" data-mini-rdoc="PSCBS::list">list</a></code>, where each element is an <code><a href="/link/integer?package=PSCBS&version=0.66.0" data-mini-rdoc="PSCBS::integer">integer</a></code> <code><a href="/link/vector?package=PSCBS&version=0.66.0" data-mini-rdoc="PSCBS::vector">vector</a></code>
 specifying segment indices of segments for which the mean levels
 should be calculated jointly.</dd> <dt>...</dt>
<dd>Not used.</dd> <dt>verbose</dt>
<dd>See <code>Verbose</code>.</dd></dl>

Arguments

Author

Updates the CN mean levels jointly in sets of segments — updateMeansTogether.AbstractCBS

<dl>

 <dt>idxList</dt>
<dd>A <code><a href='https://rdrr.io/r/base/list.html'>list</a></code>, where each element is an <code><a href='https://rdrr.io/r/base/integer.html'>integer</a></code> <code><a href='https://rdrr.io/r/base/vector.html'>vector</a></code>
 specifying segment indices of segments for which the mean levels
 should be calculated jointly.</dd>

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

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

</dl>

updateMeansTogether.AbstractCBS: Updates the CN mean levels jointly in sets of segments

Description

Usage

Value

Arguments

Author

See Also