limma

Linear Models for Microarray Data

Bioconductor version: 2.8

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 usersguide.pdf
PDF   Reference Manual

Details

biocViews Microarray, OneChannel, TwoChannel, DataImport, QualityControl, Preprocessing, Bioinformatics, DifferentialExpression, MultipleComparisons, TimeCourse
Depends R (>= 2.3.0), methods
Imports
Suggests affy, MASS, org.Hs.eg.db, splines, statmod (>= 1.2.2), vsn
System Requirements
License LGPL
URL http://bioinf.wehi.edu.au/limma
Depends On Me a4Base, AffyExpress, affylmGUI, Agi4x44PreProcess, AgiMicroRna, attract, CALIB, CCl4, cghMCR, ChIPpeakAnno, clippda, codelink, convert, coRNAi, HTqPCR, limmaGUI, LVSmiRNA, maDB, maigesPack, marray, nem, oneChannelGUI, qpcrNorm, Ringo, RMAGEML, RTools4TB, snapCGH, TurboNorm
Imports Me affycoretools, ArrayExpress, arrayQuality, arrayQualityMetrics, ArrayTools, attract, beadarray, betr, CALIB, ChIPpeakAnno, edgeR, explorase, GeneSelector, HTqPCR, iChip, maSigPro, OLIN, PatientGeneSets, phenoTest, Ringo, RNAinteract, RNAither, snapCGH, SSPA, timecourse, vsn
Suggests Me ABarray, beadarraySNP, BiocCaseStudies, BioNet, Category, CMA, dyebias, GeneSelector, GEOquery, GSRI, GSVA, les, lumi, methylumi, MLP, oligo, PGSEA, plw, puma, rtracklayer
Version 3.8.3
Since Bioconductor 1.6 (R-2.1) or earlier

Package Downloads

Package Source limma_3.8.3.tar.gz
Windows Binary limma_3.8.3.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary limma_3.8.3.tgz
Package Downloads Report Download Stats

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