CALIB: Calibration model for estimating absolute expression levels from microarray data

This package contains functions for normalizing spotted microarray data, based on a physically motivated calibration model. The model parameters and error distributions are estimated from external control spikes.

AuthorHui Zhao, Kristof Engelen, Bart De Moor and Kathleen Marchal
Date of publicationNone
MaintainerHui Zhao <hui.zhao@biw.kuleuven.be>
LicenseLGPL
Version1.40.0

View on Bioconductor

Files in this package

CALIB/DESCRIPTION
CALIB/NAMESPACE
CALIB/R
CALIB/R/all.R
CALIB/build
CALIB/build/vignette.rds
CALIB/data
CALIB/data/RG.rda
CALIB/data/normdata.rda
CALIB/data/parameter.rda
CALIB/data/spike.rda
CALIB/inst
CALIB/inst/arraydata
CALIB/inst/arraydata/3000177542.txt
CALIB/inst/arraydata/3000177543.txt
CALIB/inst/arraydata/SpotTypes.txt
CALIB/inst/arraydata/annotation.txt
CALIB/inst/arraydata/conc.txt
CALIB/inst/arraydata/targets.txt
CALIB/inst/doc
CALIB/inst/doc/quickstart.R
CALIB/inst/doc/quickstart.Rnw
CALIB/inst/doc/quickstart.pdf
CALIB/man
CALIB/man/ParameterList-class.Rd CALIB/man/RG.Rd CALIB/man/RGList_CALIB-class.Rd CALIB/man/SpikeList-class.Rd CALIB/man/adjustP2.Rd CALIB/man/calibReadMe.Rd CALIB/man/cbind.Rd CALIB/man/dim.Rd CALIB/man/dimnames.Rd CALIB/man/estimateParameter.Rd CALIB/man/getColClasses.Rd CALIB/man/merge.Rd CALIB/man/normalizeData.Rd CALIB/man/normdata.Rd CALIB/man/parameter.Rd CALIB/man/plotNormalizedData.Rd CALIB/man/plotSpikeCI.Rd CALIB/man/plotSpikeHI.Rd CALIB/man/plotSpikeRG.Rd CALIB/man/plotSpikeSpotError.Rd CALIB/man/read.rg.Rd CALIB/man/read.spike.Rd CALIB/man/spike.Rd CALIB/man/subsetting.Rd
CALIB/src
CALIB/src/Design.cpp
CALIB/src/Design.h
CALIB/src/Estimation.cpp
CALIB/src/NormalizedData.cpp
CALIB/src/NormalizedData.h
CALIB/src/ParameterofOneArray.cpp
CALIB/src/ParameterofOneArray.h
CALIB/src/RawDataofOneArray.cpp
CALIB/src/RawDataofOneArray.h
CALIB/src/SpikeofOneArray.cpp
CALIB/src/SpikeofOneArray.h
CALIB/vignettes
CALIB/vignettes/quickstart.Rnw
CALIB/vignettes/readme.pdf

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