cn.farms

DOI: 10.18129/B9.bioc.cn.farms    

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

cn.FARMS - factor analysis for copy number estimation

Bioconductor version: Development (3.8)

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 bioinf.jku.at>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("cn.farms")

 

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

Details

biocViews CopyNumberVariation, Microarray, Software
Version 1.29.1
In Bioconductor since BioC 2.8 (R-2.13) (7.5 years)
License LGPL (>= 2.0)
Depends R (>= 3.0), Biobase, methods, ff, oligoClasses, snow
Imports DBI, affxparser, oligo, DNAcopy, preprocessCore, lattice
LinkingTo
Suggests pd.mapping250k.sty, pd.mapping250k.nsp, pd.genomewidesnp.5, pd.genomewidesnp.6
SystemRequirements
Enhances
URL http://www.bioinf.jku.at/software/cnfarms/cnfarms.html
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package cn.farms_1.29.1.tar.gz
Windows Binary cn.farms_1.29.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) cn.farms_1.29.1.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
Package Short Url http://bioconductor.org/packages/cn.farms/
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