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spikeLI

Affymetrix Spike-in Langmuir Isotherm Data Analysis Tool

Bioconductor version: Release (3.17)

SpikeLI is a package that performs the analysis of the Affymetrix spike-in data using the Langmuir Isotherm. The aim of this package is to show the advantages of a physical-chemistry based analysis of the Affymetrix microarray data compared to the traditional methods. The spike-in (or Latin square) data for the HGU95 and HGU133 chipsets have been downloaded from the Affymetrix web site. The model used in the spikeLI package is described in details in E. Carlon and T. Heim, Physica A 362, 433 (2006).

Author: Delphine Baillon, Paul Leclercq <paulleclercq at hotmail.com>, Sarah Ternisien, Thomas Heim, Enrico Carlon <enrico.carlon at fys.kuleuven.be>

Maintainer: Enrico Carlon <enrico.carlon at fys.kuleuven.be>

Citation (from within R, enter citation("spikeLI")):

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("spikeLI")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("spikeLI")
spikeLI PDF
Reference Manual PDF

Details

biocViews Microarray, QualityControl, Software
Version 2.60.0
In Bioconductor since BioC 1.9 (R-2.4) (17 years)
License GPL-2
Depends
Imports graphics, grDevices, stats, utils
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package spikeLI_2.60.0.tar.gz
Windows Binary spikeLI_2.60.0.zip
macOS Binary (x86_64) spikeLI_2.60.0.tgz
macOS Binary (arm64) spikeLI_2.60.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/spikeLI
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/spikeLI
Bioc Package Browser https://code.bioconductor.org/browse/spikeLI/
Package Short Url https://bioconductor.org/packages/spikeLI/
Package Downloads Report Download Stats