Package: AffyRNADegradation 1.59.0

Mario Fasold

AffyRNADegradation: Analyze and correct probe positional bias in microarray data due to RNA degradation

The package helps with the assessment and correction of RNA degradation effects in Affymetrix 3' expression arrays. The parameter d gives a robust and accurate measure of RNA integrity. The correction removes the probe positional bias, and thus improves comparability of samples that are affected by RNA degradation.

Authors:Mario Fasold

AffyRNADegradation_1.59.0.tar.gz
AffyRNADegradation_1.59.0.zip(r-4.7)AffyRNADegradation_1.59.0.zip(r-4.6)AffyRNADegradation_1.59.0.zip(r-4.5)
AffyRNADegradation_1.59.0.tgz(r-4.6-any)AffyRNADegradation_1.59.0.tgz(r-4.5-any)
AffyRNADegradation_1.59.0.tar.gz(r-4.7-any)AffyRNADegradation_1.59.0.tar.gz(r-4.6-any)
AffyRNADegradation_1.59.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
AffyRNADegradation/json (API)
NEWS

# Install 'AffyRNADegradation' in R:

install.packages('AffyRNADegradation', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:AffyRNADegradation-1.59.0(bioc 3.24)AffyRNADegradation-1.58.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

geneexpression microarray onechannel preprocessing qualitycontrol

4.08 score 8 scripts 504 downloads 6 mentions 7 exports 7 dependencies

Last updated from:1e3deb12ff. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	158
linux-devel-x86_64	NOTE	160
source / vignettes	OK	208
linux-release-x86_64	NOTE	215
macos-release-arm64	NOTE	171
macos-oldrel-arm64	NOTE	146
windows-devel	NOTE	501
windows-release	NOTE	500
windows-oldrel	NOTE	558
wasm-release	OK	182

Exports:afbatch d GetTongs PlotDegradationHooks plotDx PlotTongs RNADegradation

Dependencies:affy affyio Biobase BiocGenerics BiocManager generics preprocessCore

AffyRNADegradation Example

Rendered fromvignette.Rnwusingutils::Sweaveon Jun 12 2026.

Last update: 2013-11-01
Started: 2013-11-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Class AffyDegradationBatch	afbatch afbatch,AffyDegradationBatch-method AffyDegradationBatch AffyDegradationBatch,ANY AffyDegradationBatch-class d d,AffyDegradationBatch-method plotDx plotDx,AffyDegradationBatch-method
AffyRNADegradation: analyze and correct RNA degradation effects	AffyRNADegradation-package AffyRNADegradation
Generate and visualize the tongs plot	GetTongs PlotDegradationHooks PlotTongs
Compute degradation parameters and correct probe intensities	RNADegradation