This package is for version 3.7 of Bioconductor;
for the stable, up-to-date release version, see
limma.
Data analysis, linear models and differential expression for microarray data.
Author: Gordon Smyth [cre,aut], Yifang Hu [ctb], Matthew Ritchie [ctb], Jeremy Silver [ctb], James Wettenhall [ctb], Davis McCarthy [ctb], Di Wu [ctb], Wei Shi [ctb], Belinda Phipson [ctb], Aaron Lun [ctb], Natalie Thorne [ctb], Alicia Oshlack [ctb], Carolyn de Graaf [ctb], Yunshun Chen [ctb], Mette Langaas [ctb], Egil Ferkingstad [ctb], Marcus Davy [ctb], Francois Pepin [ctb], Dongseok Choi [ctb]
To view documentation for the version of this package installed
in your system, start R and enter:
| biocViews |
AlternativeSplicing, BatchEffect, Bayesian, Clustering, DataImport, DifferentialExpression, DifferentialSplicing, ExonArray, GeneExpression, GeneSetEnrichment, Genetics, MicroRNAArray, Microarray, MultipleComparison, Normalization, OneChannel, Preprocessing, ProprietaryPlatforms, QualityControl, RNASeq, Regression, Sequencing, Software, TimeCourse, Transcription, TwoChannel, mRNAMicroarray |
| Version |
3.36.5 |
| In Bioconductor since |
BioC 1.6 (R-2.1) or earlier (> 13.5 years) |
| License |
GPL (>=2) |
| Depends |
R (>= 2.3.0) |
| Imports |
grDevices, graphics, stats, utils, methods |
| LinkingTo |
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| Suggests |
affy, AnnotationDbi, BiasedUrn, Biobase, ellipse, GO.db, gplots, illuminaio, locfit, MASS, org.Hs.eg.db, splines, statmod (>= 1.2.2), vsn |
| SystemRequirements |
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| Enhances |
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| URL |
http://bioinf.wehi.edu.au/limma |
| Depends On Me |
a4Base, AffyExpress, AgiMicroRna, birta, BLMA, CALIB, CCl4, cghMCR, ChimpHumanBrainData, clippda, codelink, convert, Cormotif, DrugVsDisease, edgeR, EGSEA123, ExiMiR, ExpressionAtlas, FEM, Fletcher2013a, gCMAP, genefu, HD2013SGI, HTqPCR, maigesPack, maPredictDSC, marray, metagenomeSeq, metaseqR, methylationArrayAnalysis, MmPalateMiRNA, mpra, PGPC, prot2D, qpcrNorm, qusage, RBM, Ringo, RNAseq123, RnBeads, Rnits, simpleSingleCell, snapCGH, splineTimeR, SRGnet, SSPA, tRanslatome, TurboNorm, variancePartition, wateRmelon |
| Imports Me |
ABSSeq, affycoretools, affylmGUI, anamiR, anota2seq, ArrayExpress, arrayQuality, arrayQualityMetrics, ArrayTools, ATACseqQC, attract, ballgown, BatchQC, beadarray, BeadArrayUseCases, biotmle, birte, bsseq, BubbleTree, bumphunter, CALIB, CancerMutationAnalysis, CancerSubtypes, casper, CATALYST, ChAMP, charm, ChIPComp, ChIPpeakAnno, clusterExperiment, coexnet, compcodeR, CONFESS, consensusOV, CountClust, crlmm, crossmeta, csaw, ctsGE, cytofWorkflow, DaMiRseq, DAPAR, debrowser, DEP, derfinderPlot, DEsubs, DiffBind, diffcyt, diffHic, diffloop, DmelSGI, DMRcate, Doscheda, DRIMSeq, EBSEA, eegc, EGAD, EGSEA, EnrichmentBrowser, erccdashboard, EventPointer, explorase, ExpressionNormalizationWorkflow, flowBin, gCrisprTools, GDCRNATools, GeneSelectMMD, GeneSelector, GEOquery, GGBase, GOsummaries, gQTLstats, GUIDEseq, hipathia, HTqPCR, iCheck, iChip, iCOBRA, ideal, InPAS, isomiRs, limmaGUI, Linnorm, lmdme, LVSmiRNA, mAPKL, mCSEA, MEAL, methylKit, MethylMix, methyvim, MIGSA, minfi, miRLAB, missMethyl, MLSeq, MmPalateMiRNA, monocle, MoonlightR, MSstats, MultiDataSet, NADfinder, nem, nethet, nondetects, OGSA, OLIN, omicRexposome, PAA, PADOG, PathoStat, pbcmc, pcaExplorer, PECA, pepStat, phantasus, phenoTest, polyester, psichomics, qsea, rCGH, recountWorkflow, regsplice, ReportingTools, Ringo, RNAinteract, RNAither, RTCGAToolbox, RTN, RTopper, scater, scone, scran, SEPIRA, seqsetvis, sigaR, SimBindProfiles, singleCellTK, snapCGH, STATegRa, sva, SVAPLSseq, systemPipeR, TCGAbiolinks, timecourse, TPP, transcriptogramer, TVTB, tweeDEseq, vsn, yamss, yarn |
| Suggests Me |
ABarray, ADaCGH2, arrays, beadarraySNP, biobroom, BiocCaseStudies, BioNet, BloodCancerMultiOmics2017, Category, categoryCompare, ClassifyR, CMA, coGPS, cydar, derfinder, DEScan2, dyebias, ELBOW, fgsea, gage, GeneSelector, GeuvadisTranscriptExpr, Glimma, GSRI, GSVA, Harman, Heatplus, isobar, ivygapSE, les, lumi, mammaPrintData, MAST, mdgsa, methylumi, MLP, npGSEA, oligo, oppar, paxtoolsr, PGSEA, piano, plw, PREDA, puma, Rcade, RTopper, rtracklayer, seventyGeneData, stageR, subSeq, SummarizedBenchmark, tximport, zFPKM |
| Links To Me |
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| Build Report |
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