genefilter
genefilter: methods for filtering genes from high-throughput experiments
Bioconductor version: Release (3.17)
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("genefilter")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("genefilter")For older versions of R, please refer to the appropriate Bioconductor 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) | R Script | |
| howtogenefinder.knit | HTML | R Script |
| Using the genefilter function to filter genes from a microarray | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Microarray, Software |
| Version | 1.82.1 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier (> 18 years) |
| License | Artistic-2.0 |
| Depends | |
| Imports | MatrixGenerics(>= 1.11.1), AnnotationDbi, annotate, Biobase, graphics, methods, stats, survival, grDevices |
| Linking To | |
| Suggests | class, hgu95av2.db, tkWidgets, ALL, ROC, RColorBrewer, BiocStyle, knitr |
| System Requirements | |
| Enhances | |
| URL |
See More
| Depends On Me | cellHTS2, CNTools, GeneMeta, Hiiragi2013, maEndToEnd, rnaseqGene, SISPA, sva |
| Imports Me | a4Base, annmap, arrayQualityMetrics, Category, cbaf, ClassifyR, countsimQC, covRNA, DEXSeq, ENmix, FlowSorted.Blood.EPIC, GISPA, GSRI, IHWpaper, metaseqR2, methylCC, methylumi, minfi, MLInterfaces, mogsa, NBAMSeq, NxtIRFcore, pcaExplorer, PECA, phenoTest, protGear, pwrEWAS, Ringo, RNAinteractMAPK, SGCP, spatialHeatmap, SpliceWiz, tilingArray, XDE, zinbwave |
| Suggests Me | annotate, BioNet, BloodCancerMultiOmics2017, categoryCompare, clusterStab, codelink, cola, compcodeR, curatedBladderData, curatedCRCData, curatedOvarianData, DelayedArray, EnrichedHeatmap, factDesign, ffpe, ffpeExampleData, gageData, GenomicFiles, GOstats, GSAR, GSEAlm, GSVA, logicFS, lumi, MAQCsubset, MMUPHin, npGSEA, oligo, phyloseq, pvac, qpgraph, RforProteomics, rheumaticConditionWOLLBOLD, rtracklayer, siggenes, simplifyEnrichment, Single.mTEC.Transcriptomes, TCGAbiolinks, topGO |
| Links To Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | genefilter_1.82.1.tar.gz |
| Windows Binary | genefilter_1.82.1.zip |
| macOS Binary (x86_64) | genefilter_1.82.1.tgz |
| macOS Binary (arm64) | genefilter_1.82.1.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 |
| Old Source Packages for BioC 3.17 | Source Archive |