affycoretools

DOI: 10.18129/B9.bioc.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>

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

PDF		Reference Manual

Details

biocViews	GeneExpression, Microarray, OneChannel, ReportWriting, Software
Version	1.73.0
In Bioconductor since	BioC 1.8 (R-2.3) (17 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
LinkingTo
Suggests	affydata, hgfocuscdf, BiocStyle, knitr, hgu95av2.db, rgl, rmarkdown
SystemRequirements
Enhances
URL
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/
Package Downloads Report	Download Stats