Files in JamesStimson/transnp
Transmission inference using SNP data
DESCRIPTION
NAMESPACE
R/Proposal.R
R/estimate_tree.R
R/filter.R
R/utility.R
R/visuals.R
README.md
inst/doc/intro.R
inst/doc/intro.Rmd
inst/extdata/demo_cluster_CL001.fas
inst/extdata/demo_cluster_CL002.fas
inst/extdata/demo_cluster_CL005.fas
inst/extdata/demo_cluster_CL007.fas
inst/extdata/demo_dates.csv
man/addAlignment.Rd
man/createMLTrees.Rd
man/createTimedTrees.Rd
man/estimate.tree.Rd
man/estimatetree.Rd
man/filterInfectedDate.Rd
man/filterPossibleWiw.Rd
man/filterTransPair.Rd
man/getGenerationTimes.Rd
man/getInfectionDates.Rd
man/getInfectionTimes.Rd
man/getLikelyInfectors.Rd
man/getNumberUnsampled.Rd
man/getTTreeDistInfo.Rd
man/getTimesToSampling.Rd
man/infer_multiTTree_shareParam.Rd
man/networkPlot.Rd
man/networkTPlot.Rd
man/plotGenerationTimeDensity.Rd
man/plotInfectionDateDensity.Rd
man/plotSampleTimeDensity.Rd
man/plotTransTreeSummary.Rd
man/plot_gen_times.Rd
man/plot_times_to_samp.Rd
man/plot_unsampled_cases.Rd
man/setUpDates.Rd
man/simulTransTrees.Rd
transnp.Rproj
vignettes/.DS_Store
vignettes/intro.Rmd
