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 (3.20)
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 "4.4") 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
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("affycoretools")
Creating annotated output with \Biocpkg{affycoretools} and ReportingTools | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | GeneExpression, Microarray, OneChannel, ReportWriting, Software |
Version | 1.77.0 |
In Bioconductor since | BioC 1.8 (R-2.3) (18.5 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 |
System Requirements | |
URL |
See More
Suggests | affydata, hgfocuscdf, BiocStyle, knitr, hgu95av2.db, rgl, rmarkdown |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | EnMCB |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | affycoretools_1.77.0.tar.gz |
Windows Binary | affycoretools_1.77.0.zip |
macOS Binary (x86_64) | affycoretools_1.77.0.tgz |
macOS Binary (arm64) | affycoretools_1.77.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/affycoretools |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/affycoretools |
Bioc Package Browser | https://code.bioconductor.org/browse/affycoretools/ |
Package Short Url | https://bioconductor.org/packages/affycoretools/ |
Package Downloads Report | Download Stats |