genefilter
This is the released version of genefilter; for the devel version, see genefilter.
genefilter: methods for filtering genes from high-throughput experiments
Bioconductor version: Release (3.23)
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")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") 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 | 1.94.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier (> 21 years) |
| License | Artistic-2.0 |
| Depends | |
| Imports | MatrixGenerics(>= 1.11.1), AnnotationDbi, annotate, Biobase, graphics, methods, stats, survival, grDevices |
| System Requirements | |
| URL |
See More
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | genefilter_1.94.0.tar.gz |
| Windows Binary (x86_64) | genefilter_1.94.0.zip |
| macOS Binary (big-sur-x86_64) | genefilter_1.94.0.tgz |
| macOS Binary (sonoma-arm64) | genefilter_1.94.0.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 |