Package: affyILM 1.59.0

Myriam Kroll and Fabrice Berger

affyILM: Linear Model of background subtraction and the Langmuir isotherm

affyILM is a preprocessing tool which estimates gene expression levels for Affymetrix Gene Chips. Input from physical chemistry is employed to first background subtract intensities before calculating concentrations on behalf of the Langmuir model.

Authors:K. Myriam Kroll, Fabrice Berger, Gerard Barkema, Enrico Carlon

affyILM_1.59.0.tar.gz
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affyILM.pdf |affyILM.html✨
affyILM/json (API)

# Install 'affyILM' in R:

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

On BioConductor:affyILM-1.57.0(bioc 3.20)affyILM-1.56.0(bioc 3.19)

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

microarray onechannel preprocessing

3.30 score 1 scripts 391 downloads 7 exports 25 dependencies

Last updated 23 days agofrom:3485abcfcd. Checks:OK: 7. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Oct 30 2024
R-4.5-win	OK	Oct 30 2024
R-4.5-linux	OK	Oct 30 2024
R-4.4-win	OK	Oct 30 2024
R-4.4-mac	OK	Oct 30 2024
R-4.3-win	OK	Oct 30 2024
R-4.3-mac	OK	Oct 30 2024

Exports:getExprSummary getIntens getProbeConcs getSDSummary ilm plotILM plotIntens

Dependencies:affxparser affy affyio askpass Biobase BiocGenerics BiocManager Biostrings crayon curl gcrma GenomeInfoDb GenomeInfoDbData httr IRanges jsonlite mime openssl preprocessCore R6 S4Vectors sys UCSC.utils XVector zlibbioc

affyILM1.3.0

Rendered fromaffyILM.Rnwusingutils::Sweaveon Oct 30 2024.

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

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
affyILM	ilm
Class to contain the results of an ilm calculation	ILM ILM-class
Methods to access the results of ilm.	getExprSummary getExprSummary,ILM,character-method getExprSummary,ILM,missing-method getExprSummary,ILM-method getExprSummary-methods getIntens getIntens,ILM,character-method getIntens,ILM,missing-method getIntens,ILM-method getIntens-methods getProbeConcs getProbeConcs,ILM,character-method getProbeConcs,ILM,missing-method getProbeConcs,ILM-method getProbeConcs-methods getSDSummary getSDSummary,ILM,character-method getSDSummary,ILM,missing-method getSDSummary,ILM-method getSDSummary-methods show show,ILM-method [,ILM-method
plotILM	plotILM plotILM,ILM,character-method plotILM,ILM,missing-method plotILM,ILM-method
plotIntens	plotIntens plotIntens,ILM,character-method plotIntens,ILM,missing-method plotIntens,ILM-method