├── .gitignore ├── LICENSE ├── LICENSE_notes ├── README.md ├── demo └── demo.R ├── epiforecast.cpp14funs ├── DESCRIPTION ├── NAMESPACE ├── R │ ├── RcppExports.R │ ├── checks.R │ ├── curve-fits.R │ ├── eb.R │ ├── eb_dists.R │ └── interface.R ├── man-roxygen │ ├── param_baseline.R │ ├── param_full.dat.R │ ├── param_max.n.sims.R │ └── sim.method_template.R ├── src │ ├── Makevars │ ├── RcppExports.cpp │ ├── eb_rcpp.cpp │ └── epiforecast.cpp14funs_types.hpp └── tests │ └── testthat │ ├── fluview_hhs1_fetch.Rdata.rds │ └── test-eb.sim.R ├── epiforecast.cpp14funs_0.0.1.pdf ├── epiforecast ├── .gitignore ├── DESCRIPTION ├── NAMESPACE ├── R │ ├── RcppExports.R │ ├── backcasters.R │ ├── backcasters_new.R │ ├── br.R │ ├── cv.R │ ├── cv_apply.R │ ├── delphi_epidata.R │ ├── empirical.futures.R │ ├── empirical.trajectories.R │ ├── ensemble.R │ ├── epiproject.R │ ├── forecast_type.R │ ├── get_completed_fluview_state_df.R │ ├── holidays.R │ ├── loaders.R │ ├── map_join.R │ ├── match.R │ ├── namesp.R │ ├── predx_v2_spreadsheets.R │ ├── read.R │ ├── simclass.R │ ├── simplify2arrayp.R │ ├── target_spec.R │ ├── todo-by-file.R │ ├── twkde.R │ ├── utils.R │ └── weeks.R ├── data-raw │ └── fluview.outdated.R ├── data │ ├── fluview.2003on.outdated.dats.rda │ └── fluview.2003on.outdated.new.dats.rda ├── man-roxygen │ ├── param_baseline.R │ ├── param_full.dat.R │ ├── param_invent.scalars.R │ ├── param_max.n.sims.R │ └── sim.method_template.R ├── meta.R ├── src │ ├── RcppExports.cpp │ └── histograms_rcpp.cpp ├── tests │ └── testthat │ │ ├── test-br.sim.R │ │ ├── test-check.file.contents.R │ │ ├── test-read.from.file.R │ │ ├── test-twkde.markovian.sim.R │ │ ├── test-twkde.sim.R │ │ └── test_match.arg.or.default.R └── vignettes │ ├── fetch_data.Rmd │ ├── fetch_data.html │ ├── fetch_data[woven].md │ ├── figure │ ├── unnamed-chunk-1-1.png │ ├── unnamed-chunk-1-2.png │ ├── unnamed-chunk-2-1.png │ ├── unnamed-chunk-2-2.png │ ├── unnamed-chunk-3-1.png │ └── unnamed-chunk-3-2.png │ ├── make-forecasts-br.Rmd │ ├── make-forecasts-br.html │ └── test.R ├── epiforecast_0.0.1.pdf ├── sample ├── census_weights.rds ├── combine-spreadsheets.R ├── covid19ilinet-templates.R ├── gen-prospective-component-forecasts.R ├── gen-prospective-ensemble-forecasts.R ├── gen-retro-component-forecasts.R ├── gen-retro-ensemble-forecasts.R ├── generate-retro-and-prospective-forecasts.R ├── high-state-config.R ├── high-state-forecasts.R ├── hospitalization-forecasts.R ├── low-state-config.R ├── low-state-forecasts.R ├── merge-state-forecasts.R ├── natreg-config.R ├── natreg-for-collaborative-ensemble.R ├── natreg-forecasts.R ├── natreg-with-eb-config.R ├── natreg-with-eb.R ├── prepare-covid19-submissions.R ├── retrospective_forecasts.R └── state-eval-config.R └── scratch └── flusurv_pancast_viz.R /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/cmu-delphi/epiforecast-R/HEAD/.gitignore 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