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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("affyPara")
In most cases, you don't need to download the package archive at all.
affyPara
Parallelized preprocessing methods for Affymetrix Oligonucleotide Arrays
Bioconductor version: 2.14
The package contains parallelized functions for exploratory oligonucleotide array analysis. The package is designed for large numbers of microarray data.
Author: Markus Schmidberger <schmidb at ibe.med.uni-muenchen.de>, Esmeralda Vicedo <e.vicedo at gmx.net>, Ulrich Mansmann <mansmann at ibe.med.uni-muenchen.de>
Maintainer: Markus Schmidberger <MSchmidberger at freenet.de>
Citation (from within R,
enter citation("affyPara")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("affyPara")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("affyPara")
| R Script | Parallelized affy functions for preprocessing | |
| R Script | Simulation Study for VSN Add-On Normalization and Subsample Size | |
| Reference Manual | ||
| Text | README | |
| Text | NEWS |
Details
| biocViews | Microarray, Preprocessing, Software |
| Version | 1.24.0 |
| In Bioconductor since | BioC 2.2 (R-2.7) |
| License | GPL-3 |
| Depends | R (>= 2.5.0), methods, affy(>= 1.20.0), snow (>= 0.2-3), vsn(>= 3.6.0), aplpack (>= 1.1.1), affyio |
| Imports | |
| Suggests | affydata |
| System Requirements | |
| URL | http://www.ibe.med.uni-muenchen.de |
| Depends On Me | |
| Imports Me | |
| Suggests Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | affyPara_1.24.0.tar.gz |
| Windows Binary | affyPara_1.24.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | affyPara_1.24.0.tgz |
| Mac OS X 10.9 (Mavericks) | affyPara_1.24.0.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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