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affycoretools

This is the development version of affycoretools; for the stable release version, see affycoretools.

Functions useful for those doing repetitive analyses with Affymetrix GeneChips

Bioconductor version: Development (3.18)

Various wrapper functions that have been written to streamline the more common analyses that a core Biostatistician might see.

Author: James W. MacDonald

Maintainer: James W. MacDonald <jmacdon at u.washington.edu>

Citation (from within R, enter citation("affycoretools")):

Installation

To install this package, start R (version "4.3") and enter: 

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("affycoretools")

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

Documentation

Reference Manual PDF

Details

biocViews GeneExpression, Microarray, OneChannel, ReportWriting, Software
Version 1.73.0
In Bioconductor since BioC 1.8 (R-2.3) (17.5 years)
License Artistic-2.0
Depends Biobase, methods
Imports affy, limma, GOstats, gcrma, splines, xtable, AnnotationDbi, ggplot2, gplots, oligoClasses, ReportingTools, hwriter, lattice, S4Vectors, edgeR, RSQLite, BiocGenerics, DBI, Glimma
Linking To
Suggests affydata, hgfocuscdf, BiocStyle, knitr, hgu95av2.db, rgl, rmarkdown
System Requirements
Enhances
URL
See More
Depends On Me AgiMicroRna
Imports Me
Suggests Me EnMCB
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/affycoretools
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/affycoretools
Package Short Url https://bioconductor.org/packages/affycoretools/
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