HenrikBengtsson/aroma.cn.eval
Objective Assessment of Copy-Number Estimates

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HenrikBengtsson/aroma.cn.eval: Objective Assessment of Copy-Number Estimates
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Objective Assessment of Copy-Number Estimates

.Rbuildignore
.coveralls.R
.gitignore
.make/.travis.yml.rsp
.make/Makefile
.make/README.md.rsp
.make/appveyor.yml.rsp
.travis.yml
DESCRIPTION
Makefile
NAMESPACE
NEWS
R/000.R R/006.fixVarArgs.R R/999.NonDocumentedObjects.R R/999.package.R R/RocCurve.R R/SegmentedGenomicSignals.ROC.R R/SegmentedGenomicSignalsInterface.testSeparation.R R/blockAvg.R R/findRocSmoothingForTpAtFp.R R/findRocTpAtFp.R R/fitRoc.R R/getBlockAverageMap.R R/makeTruth.R R/parseRegion.R R/scanRocTpAtFp.R R/zzz.R README.md
appveyor.yml
incl/999.missingdocs.txt
incl/CopyNumberRocData.Rex
incl/SegmentedCopyNumbers.ROC.Rex
incl/blockAvg.Rex
incl/findRocTpAtFp.Rex
incl/fitRoc.Rex
incl/getBlockAverageMap.Rex
incl/parseRegion.Rex
inst/rsp-ex/GSE12019,HCC1143/R/000.dataSet.R inst/rsp-ex/GSE12019,HCC1143/R/extractListOfCopyNumbers.list.R inst/rsp-ex/GSE12019,HCC1143/R/getCnList.R inst/rsp-ex/GSE12019,HCC1143/R/loadAllDataSets.R inst/rsp-ex/GSE12019,HCC1143/R/matchUnitsToTargetCdf.R inst/rsp-ex/GSE12019,HCC1143/R/onLoad.R inst/rsp-ex/GSE12019,HCC1143/R/truth.R
inst/rsp-ex/GSE12019,HCC1143/main.tex.rsp
inst/rsp-ex/GSE12019,HCC1143/natbib.bst
inst/rsp-ex/GSE13372,HCC1143,fracB/R/extractListOfCopyNumbers.list.R inst/rsp-ex/GSE13372,HCC1143,fracB/R/extractListOfFracB.list.R inst/rsp-ex/GSE13372,HCC1143,fracB/R/extractRawCopyNumbers.R inst/rsp-ex/GSE13372,HCC1143,fracB/R/getCnList.R inst/rsp-ex/GSE13372,HCC1143,fracB/R/getFracBList.R inst/rsp-ex/GSE13372,HCC1143,fracB/R/loadAllDataSets.R inst/rsp-ex/GSE13372,HCC1143,fracB/R/matchUnitsToTargetCdf.R inst/rsp-ex/GSE13372,HCC1143,fracB/R/onLoad.R inst/rsp-ex/GSE13372,HCC1143,fracB/R/truth.R
inst/rsp-ex/GSE13372,HCC1143,fracB/bioinformatics-journals-abbr.bib
inst/rsp-ex/GSE13372,HCC1143,fracB/hb-at-maths.lth.se.bib
inst/rsp-ex/GSE13372,HCC1143,fracB/main.tex.rsp
inst/rsp-ex/GSE13372,HCC1143,fracB/natbib.bst
inst/rsp-ex/GSE13372,HCC1143/R/extractListOfCopyNumbers.list.R inst/rsp-ex/GSE13372,HCC1143/R/getCnList.R inst/rsp-ex/GSE13372,HCC1143/R/loadAllDataSets.R inst/rsp-ex/GSE13372,HCC1143/R/matchUnitsToTargetCdf.R inst/rsp-ex/GSE13372,HCC1143/R/onLoad.R inst/rsp-ex/GSE13372,HCC1143/R/truth.R
inst/rsp-ex/GSE13372,HCC1143/bioinformatics-journals-abbr.bib
inst/rsp-ex/GSE13372,HCC1143/hb-at-maths.lth.se.bib
inst/rsp-ex/GSE13372,HCC1143/main.tex.rsp
inst/rsp-ex/GSE13372,HCC1143/natbib.bst
inst/rsp-ex/TCGA,CMTN/CalMaTe-SupplementaryNotes.bib
inst/rsp-ex/TCGA,CMTN/CalMaTe-SupplementaryNotes.tex.rsp
inst/rsp-ex/TCGA,CMTN/R/000.R inst/rsp-ex/TCGA,CMTN/R/001.setup.R inst/rsp-ex/TCGA,CMTN/R/002.config.R inst/rsp-ex/TCGA,CMTN/R/RawGenomicSignals.testSeparation.R inst/rsp-ex/TCGA,CMTN/R/SegmentedGenomicSignalsInterface.COLS.R inst/rsp-ex/TCGA,CMTN/R/extractHeterozygous.R inst/rsp-ex/TCGA,CMTN/R/extractListOfCopyNumbers.list.R inst/rsp-ex/TCGA,CMTN/R/extractListOfFracB.list.R inst/rsp-ex/TCGA,CMTN/R/figDevice.R inst/rsp-ex/TCGA,CMTN/R/getBalancedRegions.R inst/rsp-ex/TCGA,CMTN/R/getCnList.R inst/rsp-ex/TCGA,CMTN/R/getFracBList.R inst/rsp-ex/TCGA,CMTN/R/loadAllDataSets.R inst/rsp-ex/TCGA,CMTN/R/matchUnitsToTargetCdf.R inst/rsp-ex/TCGA,CMTN/R/pdfDev.R inst/rsp-ex/TCGA,CMTN/R/pngDev.R inst/rsp-ex/TCGA,CMTN/R/utils.R inst/rsp-ex/TCGA,CMTN/R/zzz.R
inst/rsp-ex/TCGA,CMTN/bioinformatics-journals-abbr.bib
inst/rsp-ex/TCGA,CMTN/build.Rex
inst/rsp-ex/TCGA,CMTN/main.tex.rsp
inst/rsp-ex/TCGA,CMTN/natbib.bst
inst/rsp-ex/TCGA,MSCN/R/extractListOfCopyNumbers.list.R inst/rsp-ex/TCGA,MSCN/R/getCnList.R inst/rsp-ex/TCGA,MSCN/R/matchUnitsToTargetCdf.R inst/rsp-ex/TCGA,MSCN/R/onLoad.R inst/rsp-ex/TCGA,MSCN/R/parseRegion.R inst/rsp-ex/TCGA,MSCN/R/truth.R
inst/rsp-ex/TCGA,MSCN/main.tex.rsp
inst/rsp-ex/TCGA,OV,CalMaTe/OrtizM_etal_2012-CalMaTe,SupplementaryNote,ROC.tex.rsp
inst/rsp-ex/TCGA,OV,CalMaTe/R/000.R inst/rsp-ex/TCGA,OV,CalMaTe/R/001.setup.R inst/rsp-ex/TCGA,OV,CalMaTe/R/002.config.R inst/rsp-ex/TCGA,OV,CalMaTe/R/AbstractCNData.R inst/rsp-ex/TCGA,OV,CalMaTe/R/AbstractPSCNData.R inst/rsp-ex/TCGA,OV,CalMaTe/R/NonPairedPSCNData.R inst/rsp-ex/TCGA,OV,CalMaTe/R/PairedPSCNData.R inst/rsp-ex/TCGA,OV,CalMaTe/R/colors.R inst/rsp-ex/TCGA,OV,CalMaTe/R/fitRoc.R inst/rsp-ex/TCGA,OV,CalMaTe/R/fntFUN.R inst/rsp-ex/TCGA,OV,CalMaTe/R/getBalancedRegions.R inst/rsp-ex/TCGA,OV,CalMaTe/R/loadPairedPSCNDataList.R inst/rsp-ex/TCGA,OV,CalMaTe/R/stateToColor.R inst/rsp-ex/TCGA,OV,CalMaTe/R/utils.R inst/rsp-ex/TCGA,OV,CalMaTe/R/zzz.R
inst/rsp-ex/TCGA,OV,CalMaTe/hb-at-maths.lth.se.bib
inst/rsp-ex/TCGA,OV,CalMaTe/natbib.bst
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/BengtssonH_2009c-SupplNote-v3.tex.rsp
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/000.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/001.setup.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/002.config.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/extractHeterozygous.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/extractListOfCopyNumbers.list.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/extractListOfFracB.list.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/fitRoc.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/getBalancedRegions.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/getCnList.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/getFracBList.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/loadAllDataSets.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/matchUnitsToTargetCdf.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/stateToColor.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/unique.list.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/utils.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/R/zzz.R
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/bioinformatics-journals-abbr.bib
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/build.Rex
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/hb-at-maths.lth.se.bib
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB,v3/natbib.bst
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/BengtssonH_2009c-SupplNote-v2.tex.rsp
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/BengtssonH_2009c-SupplNote.tex.rsp
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/000.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/001.setup.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/002.config.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/SegmentedGenomicSignalsInterface.COLS.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/extractHeterozygous.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/extractListOfCopyNumbers.list.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/extractListOfFracB.list.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/getBalancedRegions.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/getCnList.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/getFracBList.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/loadAllDataSets.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/matchUnitsToTargetCdf.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/unique.list.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/utils.R inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/R/zzz.R
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/bioinformatics-journals-abbr.bib
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/build.Rex
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/hb-at-maths.lth.se.bib
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/main.tex.rsp
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/natbib.bst
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/plotsByState.tex.rsp
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/suppl.tex.rsp
inst/rsp-ex/TCGA,OV,testSet,pairs,fracB/tables.tex.rsp
inst/testScripts/results/GSE13372,HCC1143/test20090223,GSE13372,HCC1143,eval.R inst/testScripts/system/FracB/test20090429d,fracB,ROC.R inst/testScripts/system/GenomeWideSNP_6/000,GWS6,HapMap.R inst/testScripts/system/GenomeWideSNP_6/000,HapMap,truth.R inst/testScripts/system/GenomeWideSNP_6/test20090216,GWS6,HapMap,ROC.R inst/testScripts/system/GenomeWideSNP_6/test20090216,GWS6,HapMap,TPvsResolution.R inst/testScripts/system/MultiPlatform/test20090208,TCGA,MSCN.R inst/testScripts/system/MultiPlatform/test20090211,TCGA,MSCN,ROC.R inst/testScripts/system/MultiPlatform/test20090212,TCGA,MSCN,TPvsResolution.R man/Non-documented_objects.Rd man/RocCurve.Rd man/aroma.cn.eval-package.Rd man/blockAvg.matrix.Rd man/findRocSmoothingForTpAtFp.Rd man/findRocSmoothingForTpAtFp.SegmentedGenomicSignalsInterface.Rd man/findRocTpAtFp.Rd man/findRocTpAtFp.SegmentedGenomicSignalsInterface.Rd man/fitRoc.Rd man/fitRoc.SegmentedGenomicSignalsInterface.Rd man/getBlockAverageMap.Rd man/makeTruth.Rd man/parseRegion.Rd man/scanRocTpAtFp.Rd man/testSeparation.SegmentedGenomicSignalsInterface.Rd tests/parseRegion.R
vignettes/ChangePointROC.md.rsp
HenrikBengtsson/aroma.cn.eval documentation built on Dec. 9, 2019, 12:16 p.m.

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