Files in Chicago
CHiCAGO: Capture Hi-C Analysis of Genomic Organization
session.txt
NEWS
NAMESPACE
DESCRIPTION
build/vignette.rds
data/cdUnitTest.rda
R/allClasses.R
R/chicagoData-methods.R
R/chicago.R
R/peakEnrichment4Features.R
R/zzz.R
R/allGenerics.R
vignettes/Chicago.Rmd
vignettes/Chicago.bib
man/Chicago-package.Rd
man/mergeSamples.Rd
man/estimateDistFun.Rd
man/getScores.Rd
man/readAndMerge.Rd
man/defaultSettings.Rd
man/normaliseBaits.Rd
man/estimateBrownianComponent.Rd
man/overlapFragWithFeatures.Rd
man/peakEnrichment4Features.Rd
man/getSkOnly.Rd
man/modifySettings.Rd
man/exportResults.Rd
man/setExperiment.Rd
man/chicagoData.Rd
man/normaliseOtherEnds.Rd
man/getPvals.Rd
man/copyCD.Rd
man/plotBaits.Rd
man/estimateTechnicalNoise.Rd
man/plotDistFun.Rd
man/readSample.Rd
man/cdUnitTest.Rd
man/chicagoPipeline.Rd
tests/testthat.R
tests/testthat/testRecalculateColumns.R
tests/testthat/testRunFunctionsTwice.R
tests/testthat/testWeights.R
tests/testthat/Rplots.pdf
inst/CITATION
inst/doc/Chicago.Rmd
inst/doc/Chicago.html
inst/doc/Chicago.R
inst/extdata/unitTestData/unitTest_mESC_rep1.chinput
inst/extdata/unitTestData/unitTest_mESC_rep2.chinput
inst/extdata/weights/humanMacrophage-7reps.settings
inst/extdata/weights/mESC-2reps.settings
inst/extdata/weights/GM12878-2reps.settings
inst/extdata/unitTestChIP/unitTestwgEncodeSydhHistEse14H3k09me3StdPk.narrowPeak
inst/extdata/unitTestChIP/unitTestCTCF_ENCFF001ZQY.broadPeak.bed
inst/extdata/unitTestChIP/unitTestwgEncodeSydhHistEse14H3k04me3StdPk.narrowPeak
inst/extdata/unitTestChIP/unitTestwgEncodeLicrHistoneEse14H3k27acME0129olaStdPk.broadPeak
inst/extdata/unitTestChIP/unitTestH3K27me3_ENCFF001ZJO.broadPeak.bed
inst/extdata/unitTestChIP/featuresmESC.txt
inst/extdata/unitTestDesign/unitTest.npb
inst/extdata/unitTestDesign/unitTest.rmap
inst/extdata/unitTestDesign/unitTest.poe
inst/extdata/unitTestDesign/unitTest.nbpb
inst/extdata/unitTestDesign/unitTest.baitmap
