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genefilter: methods for filtering genes from high-throughput experiments

Bioconductor version: Release (3.1)

Some basic functions for filtering genes

Author: R. Gentleman, V. Carey, W. Huber, F. Hahne

Maintainer: Bioconductor Package Maintainer <maintainer at>

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PDF R Script Additional plots for: Independent filtering increases power for detecting differentially expressed genes, Bourgon et al., PNAS (2010)
PDF R Script Diagnostics for independent filtering
PDF R Script How to find genes whose expression profile is similar to that of specified genes
PDF R Script Using the genefilter function to filter genes from a microarray dataset
PDF   Reference Manual


biocViews Microarray, Software
Version 1.50.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 10.5 years)
License Artistic-2.0
Imports AnnotationDbi, annotate, Biobase, graphics, methods, stats, survival
Suggests class, hgu95av2.db, tkWidgets, ALL, ROC, DESeq, pasilla, BiocStyle, knitr
Depends On Me a4Base, ampliQueso, cellHTS, cellHTS2, charm, CNTools, GeneMeta, Hiiragi2013, simpleaffy, sva
Imports Me affyQCReport, annmap, arrayQualityMetrics, Category, DESeq, DESeq2, DEXSeq, eisa, gCMAP, GGBase, GSRI, methyAnalysis, methylumi, minfi, MLInterfaces, mogsa, PECA, phenoTest, Ringo, RNAinteractMAPK, simpleaffy, tilingArray, XDE
Suggests Me AffyExpress, annotate, ArrayTools, BiocCaseStudies, BioNet, Category, categoryCompare, clusterStab, codelink, compcodeR, curatedBladderData, curatedCRCData, curatedOvarianData, estrogen, factDesign, ffpe, ffpeExampleData, gageData, GenomicFiles, GOstats, GSAR, GSEAlm, GSVA, logicFS, lumi, MAQCsubset, MCRestimate, npGSEA, oligo, oneChannelGUI, phyloseq, pvac, qpgraph, rheumaticConditionWOLLBOLD, rtracklayer, siggenes, SSPA, topGO, XDE
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