simpleaffy
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see simpleaffy.
Very simple high level analysis of Affymetrix data
Bioconductor version: 3.9
Provides high level functions for reading Affy .CEL files, phenotypic data, and then computing simple things with it, such as t-tests, fold changes and the like. Makes heavy use of the affy library. Also has some basic scatter plot functions and mechanisms for generating high resolution journal figures...
Author: Crispin J Miller
Maintainer: Crispin Miller <cmiller at picr.man.ac.uk>
citation("simpleaffy")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("simpleaffy")
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("simpleaffy")| simpleaffy primer | R Script | |
| Reference Manual | ||
| README | Text |
Details
| biocViews | Annotation, DataImport, DifferentialExpression, Microarray, OneChannel, Preprocessing, QualityControl, ReportWriting, Software, Transcription, Visualization |
| Version | 2.60.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier (> 19 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.0.0), methods, utils, grDevices, graphics, stats, BiocGenerics(>= 0.1.12), Biobase, affy(>= 1.33.6), genefilter, gcrma |
| Imports | methods, utils, grDevices, graphics, stats, BiocGenerics, Biobase, affy, genefilter, gcrma |
| System Requirements | |
| URL | http://www.bioconductor.org http://bioinformatics.picr.man.ac.uk/simpleaffy/ |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | yaqcaffy |
| Imports Me | affyQCReport, arrayMvout |
| Suggests Me | AffyExpress, ArrayTools, ELBOW |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | simpleaffy_2.60.0.tar.gz |
| Windows Binary | simpleaffy_2.60.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | simpleaffy_2.60.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/simpleaffy |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/simpleaffy |
| Bioc Package Browser | https://code.bioconductor.org/browse/simpleaffy/ |
| Package Short Url | https://bioconductor.org/packages/simpleaffy/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |