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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("AffyExpress")
In most cases, you don't need to download the package archive at all.
AffyExpress
Affymetrix Quality Assessment and Analysis Tool
Bioconductor version: 2.14
The purpose of this package is to provide a comprehensive and easy-to-use tool for quality assessment and to identify differentially expressed genes in the Affymetrix gene expression data.
Author: Xiwei Wu <xwu at coh.org>, Xuejun Arthur Li <xueli at coh.org>
Maintainer: Xuejun Arthur Li <xueli at coh.org>
Citation (from within R,
enter citation("AffyExpress")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("AffyExpress")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("AffyExpress")
| R Script | 1. Primer | |
| Reference Manual |
Details
| biocViews | Annotation, DifferentialExpression, Microarray, OneChannel, Preprocessing, QualityControl, ReportWriting, Software, Visualization |
| Version | 1.30.0 |
| In Bioconductor since | BioC 2.1 (R-2.6) |
| License | LGPL |
| Depends | R (>= 2.10), affy(>= 1.23.4), limma |
| Imports | |
| Suggests | simpleaffy, R2HTML, affyPLM, hgu95av2cdf, hgu95av2, test3cdf, genefilter, estrogen, annaffy, gcrma |
| System Requirements | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | AffyExpress_1.30.0.tar.gz |
| Windows Binary | AffyExpress_1.30.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | AffyExpress_1.30.0.tgz |
| Mac OS X 10.9 (Mavericks) | AffyExpress_1.30.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
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