affycomp: Graphics Toolbox for Assessment of Affymetrix Expression Measures

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The package contains functions that can be used to compare expression measures for Affymetrix Oligonucleotide Arrays.

Author
Rafael A. Irizarry <rafa@jhu.edu> and Zhijin Wu <zwu@stat.brown.edu> with contributions from Simon Cawley <simon_cawley@affymetrix.com>
Date of publication
None
Maintainer
Rafael A. Irizarry <rafa@jhu.edu>
License
GPL (>= 2)
Version
1.50.0

View on Bioconductor

Man pages

affycomp.compfigs.auxiliary
Auxiliary functions to create comparitive Figures
affycomp.figures.auxiliary
Auxiliary functions to create Figures
affycompPlot
Assessment Plots
affycomp.table
Expression Assessment Table
assessAll
Assessment functions
assessDilution
Assessment functions for Dilution Data
assessSD
SD Assessment functions
assessSpikeIn
Assessment functions for Spike In Data
assessSpikeIn2
New Assessment functions for Spike In Data
dilution.phenodata
Phenotypic Information for Dilution Study
exprset.log
Take log base 2 of Expression
hgu133a.spikein.phenodata
phenotypic information for HGU133A spike in study
mas5.assessment
Example of the result of assessments
readin
Read Expression Date Sets
remove.hgu133a.xhyb
Remove crosshybridizers
SD
SD Assessment Functions
spikein.phenodata
phenotypic information for spike in study
xhyb
Cross hybridizers

Files in this package

affycomp/DESCRIPTION
affycomp/NAMESPACE
affycomp/R
affycomp/R/assess.R
affycomp/R/compfigs.R
affycomp/R/figures.R
affycomp/R/newfuncs.R
affycomp/R/readin.R
affycomp/R/table.R
affycomp/R/zzz.R
affycomp/build
affycomp/build/vignette.rds
affycomp/data
affycomp/data/datalist
affycomp/data/dilution.phenodata.rda
affycomp/data/hgu133a.spikein.phenodata.rda
affycomp/data/hgu133a.spikein.xhyb.rda
affycomp/data/mas5.assessment.rda
affycomp/data/spikein.phenodata.rda
affycomp/inst
affycomp/inst/Rnw
affycomp/inst/Rnw/Fig5cde.133.Rnw
affycomp/inst/Rnw/Fig5cde.Rnw
affycomp/inst/Rnw/comparison.Rnw
affycomp/inst/Rnw/complete-assessment.Rnw
affycomp/inst/Rnw/dilution-assessment.Rnw
affycomp/inst/Rnw/simple.Rnw
affycomp/inst/Rnw/spike-in-133-assessment.Rnw
affycomp/inst/Rnw/spike-in-assessment.Rnw
affycomp/inst/doc
affycomp/inst/doc/affycomp.R
affycomp/inst/doc/affycomp.Rnw
affycomp/inst/doc/affycomp.pdf
affycomp/man
affycomp/man/SD.Rd
affycomp/man/affycomp.compfigs.auxiliary.Rd
affycomp/man/affycomp.figures.auxiliary.Rd
affycomp/man/affycomp.table.Rd
affycomp/man/affycompPlot.Rd
affycomp/man/assessAll.Rd
affycomp/man/assessDilution.Rd
affycomp/man/assessSD.Rd
affycomp/man/assessSpikeIn.Rd
affycomp/man/assessSpikeIn2.Rd
affycomp/man/dilution.phenodata.Rd
affycomp/man/exprset.log.Rd
affycomp/man/hgu133a.spikein.phenodata.Rd
affycomp/man/mas5.assessment.Rd
affycomp/man/readin.Rd
affycomp/man/remove.hgu133a.xhyb.Rd
affycomp/man/spikein.phenodata.Rd
affycomp/man/xhyb.Rd
affycomp/vignettes
affycomp/vignettes/affycomp.Rnw