Files in davetgerrard/GenomicLayers
Simple, sequence-based simulation of epi-genomes.

DESCRIPTION
DEVELOPMENT.md
LICENSE
NAMESPACE
R/af.factorSet.R R/assignListNodeByCharacter.R R/buildMutationSkeleton.R R/createBindingFactor.DNA_motif.R R/createBindingFactor.DNA_regexp.R R/createBindingFactor.layer_region.R R/createLayerList.DNAString.R R/createLayerSet.BSgenome.R R/createRandomBindingFactor.R R/data.R R/getListNodeByCharacter.R R/matchBindingFactor.BSgenome.R R/matchBindingFactor.R R/modifyLayerByBindingFactor.BSgenome.R R/modifyLayerByBindingFactor.Views.R R/mutateBindingFactor.R R/mutateFactorSet.R R/optimiseFactorSet.R R/plot.factorSet.R R/plot.layerBindingHistory.R R/plot.score.hits.R R/print.bfSet.R R/recurseListNames.R R/runLayerBinding.BSgenome.R R/runLayerBinding.R R/windowMean.R R/windowWidth.R README.md
cluster_log.txt
data/GSM1182890_d3.xist.mus.meanScores.Rdata
man/GSM1182890_d3.xist.mus.meanScores.Rd man/createBindingFactor.DNA_motif.Rd man/createBindingFactor.DNA_regexp.Rd man/createBindingFactor.layer_region.Rd man/createLayerList.DNAstring.Rd man/matchBindingFactor.BSgenome.Rd man/matchBindingFactor.Rd man/modifyLayerByBindingFactor.Views.Rd man/print.bfSet.Rd man/runLayerBinding.BSgenome.Rd man/runLayerBinding.Rd scripts/CONFIG.mus.x-inactivationModel.2016-10-27.R scripts/CONFIG.mus.x-inactivationModel.BatchOpt.2016-11-11.dpsf.R scripts/CONFIG.mus.x-inactivationModel.BatchOpt.2016-11-14.dpsf.R scripts/CONFIG.mus.x-inactivationModel.BatchOpt.2016-11-25.dpsf.R scripts/CONFIG.mus.x-inactivationModel.BatchOpt.2016-11-26.dpsf.R scripts/CONFIG.mus.x-inactivationModel.Optimise.2016-11-04.R scripts/CONFIG.mus.x-inactivationModel.Optimise.2016-11-07.dpsf.R scripts/SacCer.TataPromoterOverlap.R scripts/collateRunFinalParameters.2016-11-11.R scripts/collateRunFinalParameters.2016-11-14.R scripts/compare.musXi.basic.null.models.R scripts/dev.runLayerBinding.Parallel.R scripts/dpsf.pfs.chr1.1kb.verbose.R scripts/dpsf.pfs.chr1.1kb.verbose.sparse.R scripts/dpsf.pfs.chr22.1kb.verbose.R scripts/dpsf.pfs.hg19.3factor.LayerBindingTest.R scripts/factor.CpG.mammal.R scripts/genomeWideCountPatterns.hg19.R scripts/inspect.musXinactivation.optim.scores.R scripts/listRecursionMutaiton.R scripts/load.pfs.chr19.1kb.par.R scripts/loadLargeBedGraph.R scripts/loadMotifLibrary.XK2005.R scripts/mus.X.CpGfindingCounting.R scripts/mus.plotSimonXinactivation.R scripts/mus.x-inactivation.basicCpG.R scripts/mus.x-inactivation.invertGpC.R scripts/mus.x-inactivation.worseCpG.R scripts/mus.x-inactivationModel.BatchOpt.fromConfig.R scripts/mus.x-inactivationModel.BatchOpt.parallel.fromConfig.R scripts/mus.x-inactivationModel.Optimise.fromConfig.R scripts/mus.x-inactivationModel.R scripts/mus.x-inactivationModel.fromConfig.R scripts/mus.x-inactivationModel.parallel.10.R scripts/mus.x-inactivationModel.parallel.12.R scripts/mus.x-inactivationModel.parallel.16.R scripts/mus.x-inactivationModel.parallel.4.R scripts/mus.x-inactivationModel.parallel.6.R scripts/mus.x-inactivationModel.parallel.8.R scripts/mus.x-inactivationModel.reTestOpt.parallel.fromConfig.R scripts/mus.x-inactivationPlottingFromConfig.R
scripts/mus.x.batchOpt.2016-11-11.submitter.sh
scripts/mus.x.batchOpt.2016-11-14.submitter.sh
scripts/mus.x.batchOpt.2016-11-25.submitter.sh
scripts/mus.x.batchOpt.2016-11-26.submitter.sh
scripts/mus.x.batchOptReTest.2016-11-25.submitter.sh
scripts/pfs.chr19.1kb.par.R scripts/pfs.chr19.400bp.par.R scripts/pfs.chr22.1kb.par.R scripts/pfs.chr22.1kb.verbose.R scripts/pfs.chr22.400bp.acc.R scripts/pfs.chr22.400bp.ppv.R scripts/pfs.chr22.verbose.R scripts/pfs.chr7.1kb.par.R scripts/pfs.functions.R scripts/pfs.plotting.R scripts/pfs.reloadResultOnHydra.R scripts/pfs.scoreMeasures.R scripts/plot.LogStats.R scripts/predictFromSequence.Scratchbox.R scripts/predictFromSequence.autoRun.5_layer.R scripts/predictFromSequence.autoRun.R scripts/predictFromSequence.chr22.verbose.R scripts/predictFromSequence.chr7.R scripts/predictFromSequence.chr7.verbose.R scripts/predictFromSequence.devFunc.R scripts/predictFromSequence.functions.R scripts/predictFromSequence.loadResults.R scripts/predictFromSequence.mutaationTest.R scripts/predictFromSequence.testOnNewSeq.R scripts/predictFromSequenceFirstDraft.R scripts/pwm.import.R scripts/run_tests.R scripts/scratchbox.BSgenome.R scripts/testGenomePatternMatch.R scripts/test_Gannt.R scripts/testingPackageBuildDocsLoad.R scripts/timeTest.window.max.R scripts/upDownFunc.R
testResults.tsv
tests/testthat/test_createRandomBindingFactor.R tests/testthat/test_matchBindingFactor.R tests/testthat/test_runLayerBinding.BSgenome.R tests/testthat/test_runLayerBinding.R vignettes/GenomicLayersIntroduction.Rmd
vignettes/GenomicLayersIntroduction.html
vignettes/MouseX-inacivation.Rmd
davetgerrard/GenomicLayers documentation built on Nov. 8, 2017, 1:10 p.m.