limma

Linear Models for Microarray Data

Bioconductor version: 2.10

Data analysis, linear models and differential expression for microarray data.

Author: Gordon Smyth with contributions from Matthew Ritchie, Jeremy Silver, James Wettenhall, Natalie Thorne, Mette Langaas, Egil Ferkingstad, Marcus Davy, Francois Pepin, Dongseok Choi, Davis McCarthy, Di Wu, Alicia Oshlack, Carolyn de Graaf, Yifang Hu, Wei Shi and Belinda Phipson.

Maintainer: Gordon Smyth <smyth at wehi.edu.au>

To install this package, start R and enter:

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

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

    citation("limma")

Documentation

PDF	R Script	Limma Vignette
PDF	R Script	usersguide.pdf
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bioinformatics, DataImport, DifferentialExpression, Microarray, MultipleComparisons, OneChannel, Preprocessing, QualityControl, Software, TimeCourse, TwoChannel
Depends	R (>= 2.3.0), methods
Imports
Suggests	affy, MASS, org.Hs.eg.db, splines, statmod (>= 1.2.2), vsn
System Requirements
License	GPL (>=2)
URL	http://bioinf.wehi.edu.au/limma
Depends On Me	a4Base, AffyExpress, affylmGUI, Agi4x44PreProcess, attract, birta, CALIB, CCl4, cghMCR, ChIPpeakAnno, codelink, convert, Cormotif, coRNAi, edgeR, HTqPCR, inSilicoMerging, limmaGUI, maDB, maigesPack, marray, MmPalateMiRNA, nem, qpcrNorm, Ringo, snapCGH, TurboNorm
Imports Me	affycoretools, ArrayExpress, arrayQuality, arrayQualityMetrics, ArrayTools, attract, beadarray, BeadArrayUseCases, betr, CALIB, CancerMutationAnalysis, charm, ChIPpeakAnno, DiffBind, explorase, GeneSelectMMD, GeneSelector, GGBase, HTqPCR, iChip, maSigPro, minfi, MmPalateMiRNA, OLIN, PatientGeneSets, phenoTest, Ringo, RNAinteract, RNAither, RTopper, snapCGH, SSPA, timecourse, tweeDEseq, vsn
Suggests Me	ABarray, beadarraySNP, BiocCaseStudies, BioNet, Category, categoryCompare, CMA, coGPS, dyebias, GeneSelector, GEOquery, GSRI, GSVA, Heatplus, les, lumi, methylumi, MLP, oligo, oneChannelGUI, PGSEA, plw, PREDA, puma, RTopper, rtracklayer, virtualArray
Version	3.12.3
Since	Bioconductor 1.6 (R-2.1) or earlier

Package Downloads

Package Source	limma_3.12.3.tar.gz
Windows Binary	limma_3.12.3.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	limma_3.12.3.tgz
Package Downloads Report	Download Stats