limma

Linear Models for Microarray Data

Bioconductor version: Release (2.14)

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

Author: Gordon Smyth [cre,aut], Matthew Ritchie [ctb], Jeremy Silver [ctb], James Wettenhall [ctb], Natalie Thorne [ctb], Davis McCarthy [ctb], Di Wu [ctb], Yifang Hu [ctb], Wei Shi [ctb], Belinda Phipson [ctb], Alicia Oshlack [ctb], Carolyn de Graaf [ctb], Mette Langaas [ctb], Egil Ferkingstad [ctb], Marcus Davy [ctb], Francois Pepin [ctb], Dongseok Choi [ctb]

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 One Page Introduction
PDF usersguide.pdf
PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, DifferentialExpression, Microarray, MultipleComparison, OneChannel, Preprocessing, QualityControl, Software, TimeCourse, TwoChannel
Version 3.20.1
In Bioconductor since BioC 1.6 (R-2.1) or earlier
License GPL (>=2)
Depends R (>= 2.3.0), methods
Imports
Suggests statmod (>= 1.2.2), splines, locfit, MASS, ellipse, affy, vsn, AnnotationDbi, org.Hs.eg.db, illuminaio
System Requirements
URL http://bioinf.wehi.edu.au/limma
Depends On Me a4Base, AffyExpress, affylmGUI, AgiMicroRna, attract, birta, CALIB, CCl4, cghMCR, ChimpHumanBrainData, clippda, codelink, convert, COPDSexualDimorphism, Cormotif, coRNAi, DiffBind, DMRcate, DrugVsDisease, edgeR, ExiMiR, Fletcher2013a, gCMAP, HD2013SGI, HTqPCR, limmaGUI, maigesPack, maPredictDSC, marray, metagenomeSeq, metaseqR, MLSeq, MmPalateMiRNA, nem, PADOG, prot2D, qpcrNorm, qusage, Ringo, snapCGH, SSPA, tRanslatome, TurboNorm, wateRmelon
Imports Me affycoretools, ArrayExpress, arrayQuality, arrayQualityMetrics, ArrayTools, attract, beadarray, BeadArrayUseCases, betr, bumphunter, CALIB, CancerMutationAnalysis, ChAMP, charm, ChIPpeakAnno, compcodeR, explorase, flowBin, GeneSelectMMD, GeneSelector, GGBase, HTqPCR, iChip, lmdme, LVSmiRNA, maSigPro, minfi, MmPalateMiRNA, MSstats, OLIN, PADOG, PECA, phenoTest, PhenStat, ReportingTools, Ringo, RNAinteract, RNAither, RTN, RTopper, SimBindProfiles, snapCGH, timecourse, tweeDEseq, vsn
Suggests Me ABarray, ADaCGH2, beadarraySNP, BiocCaseStudies, BioNet, Category, categoryCompare, CMA, coGPS, dyebias, ELBOW, gage, GeneSelector, GEOquery, GSRI, GSVA, Heatplus, inSilicoDb, isobar, les, lumi, mammaPrintData, methylumi, MLP, npGSEA, oligo, oneChannelGUI, PGSEA, piano, plw, PREDA, puma, Rcade, RTopper, rtracklayer, seventyGeneData, sva, virtualArray

Package Downloads

Package Source limma_3.20.1.tar.gz
Windows Binary limma_3.20.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) limma_3.20.1.tgz
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

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