genefilter

This is thereleased version of genefilter; for the devel version, seegenefilter.

genefilter: methods for filtering genes from high-throughput experiments

DOI: 10.18129/B9.bioc.genefilter

Bioconductor version: Release (3.22)

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 bioconductor.org>

Citation (from within R, entercitation("genefilter")):

Installation

To install this package, start R (version "4.5") and enter:

if (!require("BiocManager", quietly = TRUE))    install.packages("BiocManager")BiocManager::install("genefilter")

For older versions of R, please refer to the appropriateBioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("genefilter")

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
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Microarray,Software
Version	1.92.0
In Bioconductor since	BioC 1.6 (R-2.1) or earlier (> 20.5 years)
License	Artistic-2.0
Depends
Imports	MatrixGenerics(>= 1.11.1),AnnotationDbi,annotate,Biobase, graphics, methods, stats,survival, grDevices
System Requirements
URL

Suggests	class,hgu95av2.db,tkWidgets,ALL,ROC,RColorBrewer,BiocStyle,knitr
Linking To
Enhances
Depends On Me	CNTools,GeneMeta,sva,Hiiragi2013,maEndToEnd,rnaseqGene,lmQCM
Imports Me	a4Base,annmap,Category,cbaf,ClassifyR,countsimQC,covRNA,DEXSeq,GSRI,metaseqR2,methylCC,methylumi,minfi,MLInterfaces,mogsa,NBAMSeq,pcaExplorer,PECA,phenoTest,protGear,SpliceWiz,tilingArray,XDE,zinbwave,FlowSorted.Blood.EPIC,IHWpaper,causalBatch,CoNI,dGAselID,netgsa
Suggests Me	annotate,BioNet,categoryCompare,clusterStab,codelink,cola,compcodeR,DelayedArray,EnrichedHeatmap,factDesign,ffpe,GenomicFiles,GOstats,GSAR,GSEAlm,GSVA,HDF5Array,logicFS,lumi,npGSEA,oligo,phyloseq,pvac,qpgraph,rtracklayer,siggenes,simplifyEnrichment,TCGAbiolinks,topGO,BloodCancerMultiOmics2017,curatedBladderData,curatedOvarianData,estrogen,ffpeExampleData,gageData,MAQCsubset,RforProteomics,rheumaticConditionWOLLBOLD,Single.mTEC.Transcriptomes,maGUI,SuperLearner
Links To Me
Build Report	Build Report

Package Archives

FollowInstallation instructions to use this package in your R session.

Source Package	genefilter_1.92.0.tar.gz
Windows Binary (x86_64)	genefilter_1.92.0.zip
macOS Binary (x86_64)	genefilter_1.92.0.tgz
macOS Binary (arm64)	genefilter_1.92.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/genefilter
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/genefilter
Bioc Package Browser	https://code.bioconductor.org/browse/genefilter/
Package Short Url	https://bioconductor.org/packages/genefilter/
Package Downloads Report	Download Stats

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