Files in predsci/DICE

DICE: Dynamics of Interacting Community Epidemics

R/cholera_fxns.R R/county_proto.R R/data.R R/data_dengue_fxns.R R/data_fxns.R R/dice.R R/fit_user_data_fxns.R R/ggplot2_fxns.R R/mcmc_output_fxns.R R/plague_fxns.R R/plot_fxns.R R/prior_dengue_fxns.R R/prior_fxns.R R/sarima_fxns.R R/sars_fxns.R R/setup_mcmc_fxns.R R/setup_run_fxns.R R/synthetic_fxns.R R/tables_fxns.R R/who_fxns.R R/write_fxns.R README.md doc/SIRS-Equations.pdf doc/SIRS_for_DICE.pdf doc/SIR_for_DICE.pdf examples/batch-example.R man/AvgClim.Rd man/BuildDateVecs.Rd man/CDCweek2date.Rd man/CadenceNum2Name.Rd man/Date2CDCweek.Rd man/Date2CadLabel.Rd man/OpenCon.Rd man/PadNAs.Rd man/SummaryByCountry.Rd man/SummaryBySource.Rd man/add_ndays.Rd man/add_periods_cols.Rd man/build.mydata.Rd man/calc.epi.null.Rd man/calc.mech.err.Rd man/calc.null.err.Rd man/calc.plague.err.Rd man/calc.sqldata.cor.Rd man/calc.sqldata.dist.Rd man/calc.stat.err.Rd man/calcCPLRandomProfiles.Rd man/calcLLK.Rd man/calcRandomProfiles.Rd man/cdc_download.Rd man/corTable.Rd man/create_patch.Rd man/dice-package.Rd man/diceData.Rd man/distance.matrix.Rd man/fit.user.data.Rd man/fitCholera.Rd man/fitMulti.Rd man/fitMultiWHO.Rd man/fitOnePatch.Rd man/fitOnePatchWHO.Rd man/fitPlague.Rd man/fitSARIMA.Rd man/fitSARIMASD.Rd man/fitSARS.Rd man/fitSingle.Rd man/fitSingleWHO.Rd man/flights.Rd man/gammaEpi.Rd man/get.DICE.data.Rd man/get.FitLevelName.Rd man/get.ModelLevelName.Rd man/get.cdc.Rd man/get.cdc.da.Rd man/get.cdc.data.Rd man/get.cdc.prior.Rd man/get.first.year.Rd man/get.future.average.data.Rd man/get.future.similar.data.Rd man/get.mysql.Rd man/get.prior.Rd man/get.sd.da.Rd man/get.sd.future.average.data.Rd man/get.sd.future.similar.data.Rd man/get.sh.nasa.Rd man/get.sql.da.Rd man/get_disease_data.Rd man/makeDir.Rd man/mcmc.multi.write.Rd man/mcmc.onepatch.plot.Rd man/mcmc.onepatch.write.Rd man/mcmc.single.write.Rd man/multiplot.Rd man/mydata_New2Old.Rd man/plotARIMA.Rd man/plotDisease.Rd man/plotFitCDCPercentILI.Rd man/plotFitCDCPercentILI.external.Rd man/plotFitCDCPercentILI.ggplot2.Rd man/plotFitOnePatch.Rd man/plotFitOnePatch.external.Rd man/plotFitOnePatch.ggplot2.Rd man/plotHists.Rd man/plotHists.external.Rd man/plotHists.ggplot2.Rd man/plotMCMC.Rd man/plotMECH.Rd man/plotUserDataMECH.Rd man/plotUserDisease.Rd man/pluralize.Rd man/port1.Rd man/print.error.dice.Rd man/priorTable.Rd man/psi.lnlike.Rd man/psi.lnlike.deldeviance.Rd man/psi.lnlike.deviance.Rd man/psi.sim.modelA.Rd man/quanci.Rd man/results.table.Rd man/runDICE.Rd man/runDICEUserData.Rd man/runSyntheticMulti.Rd man/runSyntheticSingle.Rd man/sample.from.prior.Rd man/saveARIMA.Rd man/saveProfiles.Rd man/saveProfilesOnePatch.Rd man/saveRData.Rd man/saveTables.Rd man/set.cpl.imask.Rd man/set.imask.Rd man/set.iseed.Rd man/set.opt.list.Rd man/set.param.cpl.list.Rd man/set.param.list.Rd man/set.plague.model.Rd man/set.run.list.Rd man/set.sars.model.Rd man/set.sirb.model.Rd man/set.user.data.model.Rd man/set.user.data.opt.list.Rd man/set.user.data.param.list.Rd man/setup.coupling.mcmc.Rd man/setup.fit.mcmc.Rd man/setup.model.mcmc.Rd man/setup.single.prior.Rd man/setup.vector.fit.mcmc.Rd man/setup.vector.model.mcmc.Rd man/subset.sql.mydata.Rd man/synthetic.compare.Rd man/trimdata.in.Rd man/writeCSV.Rd man/writecsvOnePatch.Rd vignettes/Rnw2pdf.R vignettes/dice.pdf vignettes/figures/BR_2009-2010_SEIR.pdf vignettes/figures/Reg1_2015_hist_forcast.pdf vignettes/figures/Reg1_2015_hist_peak.pdf vignettes/figures/RoftModel1.pdf vignettes/figures/RoftModel2.pdf vignettes/figures/RoftModel3.pdf vignettes/figures/RoftModel5.pdf vignettes/figures/US2015_direct_fit.pdf vignettes/figures/US2015_region_fit.pdf vignettes/figures/USdirect_2015_hist_peak.pdf vignettes/figures/results-cdc-2015-2016-5-41-1.pdf vignettes/figures/sarima_error.pdf vignettes/figures/sarima_results.pdf