Files in benilton/crlmmOld
Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arrays.

.Rinstignore
.gitignore
CHANGES
DESCRIPTION
NAMESPACE
R/AllClasses.R R/AllGenerics.R R/cnrma-functions.R R/cnset-accessors.R R/crlmm-functions.R R/crlmm-illumina.R R/crlmmGT2.R R/krlmm.R R/methods-AssayData.R R/methods-CNSet.R R/methods-CNSetLM.R R/methods-PredictionRegion.R R/methods-SnpSuperSet.R R/methods-eSet.R R/snprma-functions.R R/test_crlmm_package.R R/utils.R R/zzz.R
TODO
data/cnSetExample.rda
data/cnSetExample2.rda
inst/CITATION
inst/NEWS.Rd
inst/scripts/.gitignore
inst/scripts/AffyGW.Rnw
inst/scripts/AffyGW.pdf
inst/scripts/IlluminaPreprocessCN.Rnw
inst/scripts/IlluminaPreprocessCN.pdf
inst/scripts/Infrastructure.Rnw
inst/scripts/Infrastructure.pdf
inst/scripts/Makefile
inst/scripts/copynumber.Rnw
inst/scripts/crlmmDownstream.pdf
inst/scripts/crlmmIllumina.Rnw
inst/scripts/crlmmIllumina.pdf
inst/scripts/gtypeDownstream.Rnw
inst/scripts/gtypeDownstream.pdf
inst/scripts/refs.bib
inst/scripts/sync
inst/unitTests/Makefile
inst/unitTests/test_crlmm.R inst/unitTests/test_dataExamples.R inst/unitTests/test_ff.R
man/.DS_Store
man/ABpanel.Rd man/AssayData-methods.Rd man/CNSet-methods.Rd man/ListClassConstructors.Rd man/PredictionRegion-class.Rd man/batchStatisticAccessors.Rd man/calculateRBaf.Rd man/celfile-utils.Rd man/cnSetExample.Rd man/cnrmaAffy.Rd man/constructAffyCNSet.Rd man/constructInf.Rd man/copynumberAccessors.Rd man/crlmm-package.Rd man/crlmm.Rd man/crlmmCopynumber.Rd man/crlmmIllumina.Rd man/crlmmIlluminaV2.Rd man/genotype.Illumina.Rd man/genotype.Rd man/genotypeAffy.Rd man/genotypeInf.Rd man/genotypes.Rd man/posteriorProbability.Rd man/predictionRegion.Rd man/preprocessInf.Rd man/readGenCallOutput.Rd man/readIdatFiles.Rd man/snprma.Rd man/snprmaAffy.Rd man/validCdfNames.Rd man/xyplot.Rd
src/crlmm.h
src/gtypeCaller.c
src/init.c
src/trimmed.c
src/utils.c
src/utils.h
tests/crlmm_unit_tests.R tests/doRUnit.R
vignettes/AffyGW.Rnw
vignettes/CopyNumberOverview.Rnw
vignettes/IlluminaPreprocessCN.Rnw
vignettes/Infrastructure.Rnw
vignettes/Makefile
vignettes/genotyping.Rnw
vignettes/gtypeDownstream.Rnw
benilton/crlmmOld documentation built on May 11, 2017, 4:18 a.m.