To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("a4Base")
In most cases, you don't need to download the package archive at all.
a4Base
Automated Affymetrix Array Analysis Base Package
Bioconductor version: 3.0
Automated Affymetrix Array Analysis
Author: Willem Talloen, Tobias Verbeke, Tine Casneuf, An De Bondt, Steven Osselaer and Hinrich Goehlmann, Willem Ligtenberg
Maintainer: Tobias Verbeke <tobias.verbeke at openanalytics.eu>, Willem Ligtenberg <willem.ligtenberg at openanalytics.eu>
Citation (from within R,
enter citation("a4Base")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("a4Base")
Documentation
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Microarray, Software |
| Version | 1.14.0 |
| In Bioconductor since | BioC 2.8 (R-2.13) |
| License | GPL-3 |
| Depends | methods, graphics, grid, Biobase, AnnotationDbi, annaffy, mpm, genefilter, limma, multtest, glmnet, a4Preproc, a4Core, gplots |
| Imports | |
| LinkingTo | |
| Suggests | Cairo, ALL |
| SystemRequirements | |
| Enhances | gridSVG, JavaGD |
| URL | |
| Depends On Me | a4 |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | a4Base_1.14.0.tar.gz |
| Windows Binary | a4Base_1.14.0.zip |
| Mac OS X 10.6 (Snow Leopard) | a4Base_1.14.0.tgz |
| Mac OS X 10.9 (Mavericks) | a4Base_1.14.0.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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