rCGH-cytoScan-class

An instance of class <code>"rCGH-cytoScan"</code>, which inherits from
the superclass <code>"<links4class>rCGH</links4class>"</code>.Slots described below are used to store sample information, analysis
parameters, and segmentation results. All are accessible through specific
<code>"<a href="/link/Accessors?package=rCGH&version=1.2.2" rd-options="" data-mini-rdoc="rCGH::Accessors">Accessors</a>"</code> functions.

classes

A comprehensive pipeline for analyzing and interactively 
    visualizing genomic profiles generated through commercial or custom aCGH
    arrays. As inputs, rCGH supports Agilent dual-color Feature Extraction
    files (.txt), from 44 to 400K, Affymetrix SNP6.0 and cytoScanHD
    probeset.txt, cychp.txt, and cnchp.txt files exported from ChAS or
    Affymetrix Power Tools. rCGH also supports custom arrays, provided data is
    in a suitable format. This package takes over all the steps required for
    individual genomic profiles analysis, from reading files to segmenting
    and annotating genes. This package provides several visualization functions
    (static or interactive) which facilitate individual profiles interpretation.
    Input files can be in compressed format, e.g. .bz2 or .gz.

Frederic Commo

rCGH

Comprehensive Pipeline for Analyzing and Visualizing Array-Based CGH Data

rCGH-cytoScan-class function

Objects can be created by calls of the form <code>new("rCGH-cytoScan", ...)</code>.

Objects from the Class

Class <code>"<links4class>rCGH</links4class>"</code>, directly.

Extends

No methods defined with class "rCGH-cytoScan" in the signature.

Methods

An instance of class <code>"rCGH-cytoScan"</code>, which inherits from
the superclass <code>"<linkS4class>rCGH</linkS4class>"</code>.Slots described below are used to store sample information, analysis
parameters, and segmentation results. All are accessible through specific
<code>"<a href="Accessors" rd-options="">Accessors</a>"</code> functions.

rCGH-cytoScan-class: Class `"rCGH-cytoScan"`

Description

Arguments

Objects from the Class

Extends

Methods

See Also

Examples