conumee

This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see conumee.

Enhanced copy-number variation analysis using Illumina DNA methylation arrays


Bioconductor version: 3.6

This package contains a set of processing and plotting methods for performing copy-number variation (CNV) analysis using Illumina 450k or EPIC methylation arrays.

Author: Volker Hovestadt, Marc Zapatka

Maintainer: Volker Hovestadt <conumee at hovestadt.bio>

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

Installation

To install this package, start R (version "3.4") and enter:


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

BiocManager::install("conumee")

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

Documentation

Reference Manual PDF
NEWS Text

Details

biocViews CopyNumberVariation, DNAMethylation, MethylationArray, Microarray, Normalization, Preprocessing, QualityControl, Software
Version 1.12.0
In Bioconductor since BioC 3.1 (R-3.2) (9 years)
License GPL (>= 2)
Depends R (>= 3.0), minfi, IlluminaHumanMethylation450kanno.ilmn12.hg19, IlluminaHumanMethylation450kmanifest, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, IlluminaHumanMethylationEPICmanifest
Imports methods, stats, DNAcopy, rtracklayer, GenomicRanges, IRanges, GenomeInfoDb
System Requirements
URL
See More
Suggests BiocStyle, knitr, rmarkdown, minfiData, RCurl
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
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Build Report Build Report

Package Archives

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

Source Package conumee_1.12.0.tar.gz
Windows Binary conumee_1.12.0.zip
Mac OS X 10.11 (El Capitan) conumee_1.12.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/conumee
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/conumee
Package Short Url https://bioconductor.org/packages/conumee/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.6 Source Archive