CGHcall

This is the development version of CGHcall; for the stable release version, see CGHcall.

Calling aberrations for array CGH tumor profiles.

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DOI: 10.18129/B9.bioc.CGHcall

Bioconductor version: Development (3.23)

Calls aberrations for array CGH data using a six state mixture model as well as several biological concepts that are ignored by existing algorithms. Visualization of profiles is also provided.

Author: Mark van de Wiel, Sjoerd Vosse

Maintainer: Mark van de Wiel <mark.vdwiel at vumc.nl>

Citation (from within R, enter citation("CGHcall")):

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("CGHcall")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("CGHcall")

CGHcall PDF R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Microarray, Preprocessing, Software, Visualization

Version 2.73.0

In Bioconductor since BioC 2.1 (R-2.6) (18 years)

License GPL (http://www.gnu.org/copyleft/gpl.html)

Depends R (>= 2.0.0), impute(>= 1.8.0), DNAcopy(>= 1.6.0), methods, Biobase, CGHbase(>= 1.15.1), snowfall

Imports

System Requirements

URL

Suggests

Linking To

Enhances

Depends On Me CGHnormaliter, GeneBreak

Imports Me CGHnormaliter, QDNAseq

Suggests Me

Links To Me

Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package CGHcall_2.73.0.tar.gz

Windows Binary (x86_64) CGHcall_2.73.0.zip

macOS Binary (x86_64) CGHcall_2.73.0.tgz

macOS Binary (arm64) CGHcall_2.73.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/CGHcall

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CGHcall

Bioc Package Browser https://code.bioconductor.org/browse/CGHcall/

Package Short Url https://bioconductor.org/packages/CGHcall/

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