gapsToSegments.data.frame

gapsToSegments

A <code><a rd-options="base" href="/link/data.frame?package=PSCBS&version=0.63.0&to=base" data-mini-rdoc="base::data.frame">data.frame</a></code> with columns <code>chromosome</code>, <code>start</code>,
 and <code>stop</code>. Any overlapping gaps will throw an error.

gaps

A non-negative <code><a rd-options="base" href="/link/numeric?package=PSCBS&version=0.63.0&to=base" data-mini-rdoc="base::numeric">numeric</a></code> specifying the minimum
 length unit, which by default equals one nucleotide/base pair.

resolution

Minimum length of segments to be kept.

minLength

If <code><a rd-options="base:logical" href="/link/TRUE?package=PSCBS&version=0.63.0&to=base%3Alogical" data-mini-rdoc="base:logical::TRUE">TRUE</a></code>, the gaps themselves are not part of the output.

dropGaps

Gets the genomic segments that are complementary to the gaps, with default chromosome boundaries being <code>-Inf</code>
 and <code>+Inf</code>.

methods

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

gapsToSegments.data.frame function

A <code><a rd-options='base' href='data.frame'>data.frame</a></code> with columns <code>chromosome</code>, <code>start</code>,
 and <code>stop</code>. Any overlapping gaps will throw an error.

A non-negative <code><a rd-options='base' href='numeric'>numeric</a></code> specifying the minimum
 length unit, which by default equals one nucleotide/base pair.

If <code><a rd-options='base:logical' href='TRUE'>TRUE</a></code>, the gaps themselves are not part of the output.

gapsToSegments.data.frame: Gets the genomic segments that are complementary to the gaps

Description

Usage

Arguments

Value

See Also