To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("affyio")
In most cases, you don't need to download the package archive at all.
affyio
Tools for parsing Affymetrix data files
Bioconductor version: 3.0
Routines for parsing Affymetrix data files based upon file format information. Primary focus is on accessing the CEL and CDF file formats.
Author: Benjamin Milo Bolstad <bmb at bmbolstad.com>
Maintainer: Benjamin Milo Bolstad <bmb at bmbolstad.com>
Citation (from within R,
enter citation("affyio")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("affyio")
Documentation
| Reference Manual |
Details
| biocViews | DataImport, Infrastructure, Microarray, Software |
| Version | 1.34.0 |
| In Bioconductor since | BioC 1.8 (R-2.3) |
| License | LGPL (>= 2) |
| Depends | R (>= 2.6.0) |
| Imports | zlibbioc |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | affyPara, makecdfenv, SCAN.UPC, sscore |
| Imports Me | affy, affylmGUI, crlmm, ExiMiR, gcrma, oligo, oligoClasses, puma |
| Suggests Me | BufferedMatrixMethods |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | affyio_1.34.0.tar.gz |
| Windows Binary | affyio_1.34.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | affyio_1.34.0.tgz |
| Mac OS X 10.9 (Mavericks) | affyio_1.34.0.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
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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