cn.farms

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see cn.farms.

cn.FARMS - factor analysis for copy number estimation

Bioconductor version: 3.14

This package implements the cn.FARMS algorithm for copy number variation (CNV) analysis. cn.FARMS allows to analyze the most common Affymetrix (250K-SNP6.0) array types, supports high-performance computing using snow and ff.

Author: Andreas Mitterecker, Djork-Arne Clevert

Maintainer: Andreas Mitterecker <mitterecker at ml.jku.at>

Citation (from within R, enter citation("cn.farms")):

Installation

To install this package, start R (version "4.1") and enter:


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

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("cn.farms")

cn.farms: Manual for the R package PDF R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews CopyNumberVariation, Microarray, Software

Version 1.42.0

In Bioconductor since BioC 2.8 (R-2.13) (13 years)

License LGPL (>= 2.0)

Depends R (>= 3.0), Biobase, methods, ff, oligoClasses, snow

Imports DBI, affxparser, oligo, DNAcopy, preprocessCore, lattice

System Requirements

URL http://www.bioinf.jku.at/software/cnfarms/cnfarms.html

Suggests pd.mapping250k.sty, pd.mapping250k.nsp, pd.genomewidesnp.5, pd.genomewidesnp.6

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Build Report Build Report

Package Archives

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

Source Package cn.farms_1.42.0.tar.gz

Windows Binary cn.farms_1.42.0.zip (32- & 64-bit)

macOS 10.13 (High Sierra) cn.farms_1.42.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/cn.farms

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

Bioc Package Browser https://code.bioconductor.org/browse/cn.farms/

Package Short Url https://bioconductor.org/packages/cn.farms/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.14 Source Archive