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This is the development version of genefilter; for the stable release version, see genefilter.

genefilter: methods for filtering genes from high-throughput experiments

Bioconductor version: Development (3.20)

Some basic functions for filtering genes.

Author: Robert Gentleman [aut], Vincent J. Carey [aut], Wolfgang Huber [aut], Florian Hahne [aut], Emmanuel Taiwo [ctb] ('howtogenefinder' vignette translation from Sweave to RMarkdown / HTML.), Khadijah Amusat [ctb] (Converted genefilter vignette from Sweave to RMarkdown / HTML.), Bioconductor Package Maintainer [cre]

Maintainer: Bioconductor Package Maintainer <maintainer at>

Citation (from within R, enter citation("genefilter")):


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03 - Additional plots for: Independent filtering increases power for detecting differentially expressed genes, Bourgon et al., PNAS (2010) PDF R Script
howtogenefinder.knit HTML R Script
Using the genefilter function to filter genes from a microarray HTML R Script
Reference Manual PDF


biocViews Microarray, Software
Version 1.87.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 19 years)
License Artistic-2.0
Imports MatrixGenerics(>= 1.11.1), AnnotationDbi, annotate, Biobase, graphics, methods, stats, survival, grDevices
System Requirements
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Suggests class, hgu95av2.db, tkWidgets, ALL, ROC, RColorBrewer, BiocStyle, knitr
Linking To
Depends On Me CNTools, GeneMeta, sva, Hiiragi2013, maEndToEnd, rnaseqGene, lmQCM
Imports Me a4Base, annmap, arrayQualityMetrics, broadSeq, Category, cbaf, ClassifyR, countsimQC, covRNA, DEXSeq, GSRI, metaseqR2, methylCC, methylumi, minfi, MLInterfaces, mogsa, NBAMSeq, pcaExplorer, PECA, phenoTest, protGear, SGCP, spatialHeatmap, SpliceWiz, tilingArray, XDE, zinbwave, FlowSorted.Blood.EPIC, IHWpaper, RNAinteractMAPK, CoNI, dGAselID, INCATome, MiDA, netgsa
Suggests Me annotate, BioNet, categoryCompare, clusterStab, codelink, cola, compcodeR, DelayedArray, EnrichedHeatmap, factDesign, ffpe, GenomicFiles, GOstats, GSAR, GSEAlm, GSVA, HDF5Array, logicFS, lumi, MMUPHin, npGSEA, oligo, phyloseq, pvac, qpgraph, rtracklayer, siggenes, simplifyEnrichment, TCGAbiolinks, topGO, BloodCancerMultiOmics2017, curatedBladderData, curatedOvarianData, estrogen, ffpeExampleData, gageData, MAQCsubset, RforProteomics, rheumaticConditionWOLLBOLD, Single.mTEC.Transcriptomes, maGUI, oncoPredict, SuperLearner
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