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Bioconductor - spikeLI (development version)

spikeLI

This is the development version of spikeLI; for the stable release version, see spikeLI.

Affymetrix Spike-in Langmuir Isotherm Data Analysis Tool

Bioconductor version: Development (3.22)

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 "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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 2.69.0 In Bioconductor since BioC 1.9 (R-2.4) (19 years) License GPL-2 Depends Imports graphics, grDevices, stats, utils System Requirements URL See More Suggests Linking To Enhances Depends On Me Imports Me Suggests Me Links To Me Build Report Build Report Package Archives

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

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