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CGHcall

Calling aberrations for array CGH tumor profiles.


Bioconductor version: Release (3.18)

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 "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

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

Details

biocViews Microarray, Preprocessing, Software, Visualization
Version 2.64.0
In Bioconductor since BioC 2.1 (R-2.6) (16.5 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
See More
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_2.64.0.tar.gz
Windows Binary CGHcall_2.64.0.zip
macOS Binary (x86_64) CGHcall_2.64.0.tgz
macOS Binary (arm64) CGHcall_2.64.0.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/
Package Downloads Report Download Stats