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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("altcdfenvs")
In most cases, you don't need to download the package archive at all.
altcdfenvs
alternative CDF environments (aka probeset mappings)
Bioconductor version: 3.0
Convenience data structures and functions to handle cdfenvs
Author: Laurent Gautier <lgautier at gmail.com>
Maintainer: Laurent Gautier <lgautier at gmail.com>
Citation (from within R,
enter citation("altcdfenvs")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("altcdfenvs")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("altcdfenvs")
| R Script | affy primer | |
| R Script | affy primer | |
| R Script | altcdfenvs | |
| Reference Manual |
Details
| biocViews | Annotation, Microarray, OneChannel, Preprocessing, ProprietaryPlatforms, QualityControl, Software, Transcription |
| Version | 2.28.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier |
| License | GPL (>= 2) |
| Depends | R (>= 2.7), methods, BiocGenerics(>= 0.1.0), Biobase(>= 2.15.1), affy, makecdfenv, Biostrings, hypergraph |
| Imports | |
| LinkingTo | |
| Suggests | plasmodiumanophelescdf, hgu95acdf, hgu133aprobe, hgu133a.db, hgu133acdf, Rgraphviz, RColorBrewer |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | Harshlight |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | altcdfenvs_2.28.0.tar.gz |
| Windows Binary | altcdfenvs_2.28.0.zip |
| Mac OS X 10.6 (Snow Leopard) | altcdfenvs_2.28.0.tgz |
| Mac OS X 10.9 (Mavericks) | altcdfenvs_2.28.0.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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