genefilter

genefilter: methods for filtering genes from microarray experiments

Bioconductor version: 2.8

Some basic functions for filtering genes

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

Maintainer: Biocore Team c/o BioC user list <bioconductor at stat.math.ethz.ch>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("genefilter")

To cite this package in a publication, start R and enter:

    citation("genefilter")

Documentation

PDF R Script Diagnostic plots 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

Details

biocViews Bioinformatics, Microarray
Depends
Imports AnnotationDbi, annotate(>= 1.13.7), Biobase(>= 1.99.10), graphics, methods, stats, survival
Suggests Biobase(>= 1.99.10), class, hgu95av2.db, methods, tkWidgets, ALL
System Requirements
License Artistic-2.0
URL
Depends On Me a4Base, Agi4x44PreProcess, cellHTS, cellHTS2, charm, CNTools, eisa, GeneMeta, MLInterfaces, simpleaffy
Imports Me affycoretools, affyQCReport, arrayQualityMetrics, Category, crlmm, DESeq, GSRI, methylumi, phenoTest, Ringo, RNAinteractMAPK, simpleaffy, tilingArray, XDE
Suggests Me AffyExpress, annotate, ArrayTools, BiocCaseStudies, BioNet, Category, clusterStab, codelink, estrogen, factDesign, gageData, GGtools, GOstats, GSEAlm, GSVA, logicFS, lumi, MAQCsubset, MCRestimate, oligo, oneChannelGUI, pvac, qpgraph, rtracklayer, siggenes, SNPchip, topGO, VanillaICE, XDE
Version 1.34.0
Since Bioconductor 1.6 (R-2.1) or earlier

Package Downloads

Package Source genefilter_1.34.0.tar.gz
Windows Binary genefilter_1.34.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary genefilter_1.34.0.tgz
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