To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("gcrma")
In most cases, you don't need to download the package archive at all.
gcrma
Background Adjustment Using Sequence Information
Bioconductor version: 3.0
Background adjustment using sequence information
Author: Jean(ZHIJIN) Wu, Rafael Irizarry with contributions from James MacDonald <jmacdon at med.umich.edu> Jeff Gentry
Maintainer: Z. Wu <zwu at stat.brown.edu>
Citation (from within R,
enter citation("gcrma")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("gcrma")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("gcrma")
| R Script | gcrma1.2 | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Microarray, OneChannel, Preprocessing, Software |
| Version | 2.38.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier |
| License | LGPL |
| Depends | R (>= 2.6.0), affy(>= 1.23.2), graphics, methods, stats, utils |
| Imports | Biobase, affy(>= 1.23.2), affyio(>= 1.13.3), XVector, Biostrings(>= 2.11.32), splines, BiocInstaller |
| LinkingTo | |
| Suggests | affydata, tools, splines, hgu95av2cdf, hgu95av2probe |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | affyILM, affyPLM, bgx, maPredictDSC, maskBAD, simpleaffy, webbioc |
| Imports Me | affycoretools, affylmGUI, simpleaffy |
| Suggests Me | AffyExpress, ArrayTools, BiocCaseStudies, panp |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | gcrma_2.38.0.tar.gz |
| Windows Binary | gcrma_2.38.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | gcrma_2.38.0.tgz |
| Mac OS X 10.9 (Mavericks) | gcrma_2.38.0.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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