cn.farms

cn.farms - Factor Analysis for copy number estimation

Bioconductor version: 2.8

This package implements the cn.FARMS algorithm for copy number variation (CNV) analysis. cn.FARMS allows to analyze all existing Affymetrix (10K-SNP6.0) array types, supports high-performance computing using snow and ff.

Author: Andreas Mitterecker <mitterecker at bioinf.jku.at>, Djork-Arne Clevert <okko at clevert.de>

Maintainer: Andreas Mitterecker <mitterecker at bioinf.jku.at>, Djork-Arne Clevert <okko at clevert.de>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("cn.farms")

To cite this package in a publication, start R and enter:

    citation("cn.farms")

Documentation

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

Details

biocViews Microarray, Bioinformatics, CopyNumberVariants
Depends R (>= 2.11), Biobase, methods, ff, oligoClasses, snowfall
Imports DBI, affxparser, oligo, DNAcopy, preprocessCore, lattice
Suggests pd.mapping250k.sty, pd.mapping250k.nsp, pd.genomewidesnp.5, pd.genomewidesnp.6
System Requirements
License LGPL (>= 2.0)
URL http://www.bioinf.jku.at/software/cnfarms/cnfarms.html
Depends On Me
Imports Me
Suggests Me
Version 1.1.12
Since Bioconductor 2.8 (R-2.13)

Package Downloads

Package Source cn.farms_1.1.12.tar.gz
Windows Binary cn.farms_1.1.12.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary cn.farms_1.1.12.tgz
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