estimateDeltaLOH.PairedPSCBS

PairedPSCBS.estimateDeltaLOH

estimateDeltaLOH,PairedPSCBS-method

An optional <code><a rd-options="base" href="/link/numeric?package=PSCBS&version=0.66.0&to=base" data-mini-rdoc="base::numeric">numeric</a></code> scale factor.

scale

A <code><a rd-options="base" href="/link/character?package=PSCBS&version=0.66.0&to=base" data-mini-rdoc="base::character">character</a></code> string specifying which type of
 estimator to use.

flavor

Additional arguments passed to the estimator.

(Optional) The maximum estimate allowed. If greater than
 this value, the estimate will be truncated.

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

Estimate a threshold for calling LOH from DH to be used by the <code>*callLOH()</code> method.

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

estimateDeltaLOH.PairedPSCBS function

<dl> <dt>scale</dt>
<dd>An optional <code><a href="/link/numeric?package=PSCBS&version=0.66.0" data-mini-rdoc="PSCBS::numeric">numeric</a></code> scale factor.</dd> <dt>flavor</dt>
<dd>A <code><a href="/link/character?package=PSCBS&version=0.66.0" data-mini-rdoc="PSCBS::character">character</a></code> string specifying which type of
 estimator to use.</dd> <dt>...</dt>
<dd>Additional arguments passed to the estimator.</dd> <dt>max</dt>
<dd>(Optional) The maximum estimate allowed. If greater than
 this value, the estimate will be truncated.</dd> <dt>verbose</dt>
<dd>See <code>Verbose</code>.</dd></dl>

Arguments

Author

Estimate a threshold for calling LOH from DH — estimateDeltaLOH.PairedPSCBS

<dl>

 <dt>scale</dt>
<dd>An optional <code><a href='https://rdrr.io/r/base/numeric.html'>numeric</a></code> scale factor.</dd>

 <dt>flavor</dt>
<dd>A <code><a href='https://rdrr.io/r/base/character.html'>character</a></code> string specifying which type of
 estimator to use.</dd>

 <dt>...</dt>
<dd>Additional arguments passed to the estimator.</dd>

 <dt>max</dt>
<dd>(Optional) The maximum estimate allowed. If greater than
 this value, the estimate will be truncated.</dd>

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

</dl>

estimateDeltaLOH.PairedPSCBS: Estimate a threshold for calling LOH from DH

Description

Usage

Value

Arguments

Author

See Also