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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("affyQCReport")
In most cases, you don't need to download the package archive at all.
affyQCReport
QC Report Generation for affyBatch objects
Bioconductor version: 3.0
This package creates a QC report for an AffyBatch object. The report is intended to allow the user to quickly assess the quality of a set of arrays in an AffyBatch object.
Author: Craig Parman <craig.parman at bifx.org>, Conrad Halling <conrad.halling at bifx.org>, Robert Gentleman
Maintainer: Craig Parman <craig.parman at bifx.org>
Citation (from within R,
enter citation("affyQCReport")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("affyQCReport")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("affyQCReport")
| R Script | affyQCReport: Methods for Generating Affymetrix QC Reports | |
| Reference Manual |
Details
| biocViews | Microarray, OneChannel, QualityControl, Software |
| Version | 1.44.0 |
| In Bioconductor since | BioC 1.7 (R-2.2) |
| License | LGPL (>= 2) |
| Depends | Biobase(>= 1.13.16), affy, lattice |
| Imports | affy, affyPLM, Biobase, genefilter, graphics, grDevices, lattice, RColorBrewer, simpleaffy, stats, utils, xtable |
| LinkingTo | |
| Suggests | tkWidgets(>= 1.5.23), affydata(>= 1.4.1) |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | BiocCaseStudies |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | affyQCReport_1.44.0.tar.gz |
| Windows Binary | affyQCReport_1.44.0.zip |
| Mac OS X 10.6 (Snow Leopard) | affyQCReport_1.44.0.tgz |
| Mac OS X 10.9 (Mavericks) | affyQCReport_1.44.0.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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