Files in MethEvolSIM

Simulate DNA Methylation Dynamics on Different Genomic Structures along Genealogies

README.md R/user_functions.R R/multiRegion_SIM.R R/QC.R R/summaryStatistics.R inst/doc/intro-vignette.Rmd inst/doc/intro-vignette.R inst/doc/CFTP_method-vignette.R inst/doc/sumstats-vignette.R inst/doc/CFTP_method-vignette.Rmd inst/doc/sumstats-vignette.Rmd tests/testthat.R tests/testthat/test-summaryStatistics.R tests/testthat/test-user_functions.R tests/testthat/test-multiRegion_SIM.R tests/testthat/test-QC.R vignettes/intro-vignette.Rmd vignettes/CFTP_method-vignette.Rmd vignettes/sumstats-vignette.Rmd man/simulate_initialData.Rd man/get_parameterValues.Rd man/get_nonislandSDFreqM.Rd man/get_cherryDist.Rd man/computeFitch_islandGlbSt.Rd man/categorize_siteMethSt.Rd man/mean_TreeFreqsChange_i.Rd man/mean_CherryFreqsChange_i.Rd man/cftpStepGenerator.Rd man/compare_CherryFreqs.Rd man/compute_meanCor_i.Rd man/get_islandSDFreqP.Rd man/get_nonislandSDFreqP.Rd man/validate_data_cherryDist.Rd man/combiStructureGenerator.Rd man/get_nonislandMeanFreqP.Rd man/validate_tree.Rd man/compute_fitch.Rd man/get_islandMeanFreqP.Rd man/treeMultiRegionSimulator.Rd man/count_upm.Rd man/compute_meanCor_ni.Rd man/get_nonislandMeanFreqM.Rd man/freqSites_cherryMethDiff.Rd man/MeanSiteFChange_cherry.Rd man/countSites_cherryMethDiff.Rd man/pValue_CherryFreqsChange_i.Rd man/validate_structureIndices.Rd man/get_siteFChange_cherry.Rd man/singleStructureGenerator.Rd man/get_islandMeanFreqM.Rd man/categorize_islandGlbSt.Rd man/get_meanMeth_islands.Rd man/get_islandSDFreqM.Rd man/simulate_evolData.Rd man/validate_dataAcrossTips.Rd