Files in epiforecasts/forecast.vocs
Forecast Case and Sequence Notifications using Variant of Concern Strain Dynamics

.Rbuildignore

.Rprofile

.devcontainer/Dockerfile

.devcontainer/devcontainer.json

.devcontainer/library-scripts/common-debian.sh

.github/.gitignore

.github/CODEOWNERS

.github/ISSUE_TEMPLATE/issue_template.md

.github/workflows/R-CMD-as-cran-check.yaml

.github/workflows/R-CMD-check.yaml

.github/workflows/build-and-push-image.yaml

.github/workflows/lint.yaml

.github/workflows/pkgdown.yaml

.github/workflows/test-coverage.yaml

.gitignore

.lintr

.pre-commit-config.yaml

CODE_OF_CONDUCT.md

DESCRIPTION

LICENSE

LICENSE.md

NAMESPACE

NEWS.md R/check.R R/data-scenarios.R R/datasets.R R/forecast-evaluation.R R/forecast-methods.R R/forecast-tools.R R/forecast.R R/forecast.vocs-package.R R/generate-data.R R/model-validation.R R/model.R R/plot.R R/posterior-methods.R R/postprocess.R R/preprocess.R R/utils.R README.Rmd README.md

_pkgdown.yml

data-raw/load_germany_covid19_delta_obs.R

data/germany_covid19_delta_obs.rda

inst/CITATION

inst/WORDLIST

inst/extdata/forecast_1_strains_example.csv

inst/extdata/forecast_2_strains_example.csv

inst/extdata/observations_example.csv

inst/extdata/posterior_1_strains_example.csv

inst/extdata/posterior_2_strains_example.csv

inst/scripts/1_strains_example.R inst/scripts/2_strains_example.R inst/scripts/generate_examples.R inst/scripts/model-eval.R

inst/stan/LICENSE

inst/stan/bp.stan

inst/stan/functions/cases_ar.stan

inst/stan/functions/convolve.stan

inst/stan/functions/diff_ar.stan

inst/stan/functions/periodic_adjustment.stan

inst/stan/twostrainbp.stan

man/add_forecast_dates.Rd man/bp_launch_shinystan.Rd man/check_dataframe.Rd man/check_observations.Rd man/check_param.Rd man/check_quantiles.Rd man/convert_to_stanfit.Rd man/define_scenarios.Rd man/extract_draws.Rd man/extract_forecast_dates.Rd

man/figures/README-unnamed-chunk-10-1.png

man/figures/README-unnamed-chunk-11-1.png

man/figures/README-unnamed-chunk-12-1.png

man/figures/README-unnamed-chunk-8-1.png

man/figures/README-unnamed-chunk-9-1.png

man/filter_by_availability.Rd man/forecast.Rd man/forecast.vocs-package.Rd man/forecast_across_dates.Rd man/forecast_across_scenarios.Rd man/forecast_n_strain.Rd man/fv_as_data_list.Rd man/fv_dow_period.Rd man/fv_example.Rd man/fv_extract_forecast.Rd man/fv_inits.Rd man/fv_model.Rd man/fv_posterior.Rd man/fv_sample.Rd man/fv_score_forecast.Rd man/fv_tidy_posterior.Rd man/generate_obs.Rd man/generate_obs_scenario.Rd man/germany_covid19_delta_obs.Rd man/latest_obs.Rd man/link_dates_with_posterior.Rd man/link_obs_with_posterior.Rd man/piecewise_steps.Rd man/plot.fv_forecast.Rd man/plot.fv_posterior.Rd man/plot_cases.Rd man/plot_default.Rd man/plot_growth.Rd man/plot_pairs.Rd man/plot_posterior.Rd man/plot_rt.Rd man/plot_theme.Rd man/plot_voc_advantage.Rd man/plot_voc_frac.Rd man/print.fv_posterior.Rd man/quantiles_to_long.Rd man/roxygen/meta.R man/sample_sequences.Rd man/save_plots.Rd man/summary.fv_forecast.Rd man/summary.fv_posterior.Rd man/unnest_posterior.Rd man/update_obs_availability.Rd man/update_voc_label.Rd tests/spelling.R tests/testthat.R

tests/testthat/_snaps/plot_cases/case-plot-with-custom-forecast-date.svg

tests/testthat/_snaps/plot_cases/default-case-plot-with-two-strain.svg

tests/testthat/_snaps/plot_cases/default-case-with-single-strain.svg

tests/testthat/_snaps/plot_cases/logged-case-plot-with-single-strain.svg

tests/testthat/_snaps/plot_cases/logged-case-plot-with-ss-and-central.svg

tests/testthat/_snaps/plot_cases/single-strain-forecast-plot.svg

tests/testthat/_snaps/plot_cases/two-strain-case-plot-with-all-observations.svg

tests/testthat/_snaps/plot_cases/two-strain-case-plot-with-current-observations.svg

tests/testthat/_snaps/plot_cases/two-strain-forecast-plot.svg

tests/testthat/_snaps/plot_growth/default-growth-plot-with-two-strain.svg

tests/testthat/_snaps/plot_growth/default-growth-with-single-strain.svg

tests/testthat/_snaps/plot_growth/growth-plot-with-custom-forecast-date.svg

tests/testthat/_snaps/plot_rt/default-rt-plot-with-two-strain.svg

tests/testthat/_snaps/plot_rt/default-rt-with-single-strain.svg

tests/testthat/_snaps/plot_rt/rt-plot-with-custom-forecast-date.svg

tests/testthat/_snaps/plot_voc_advantage/advantage-plot-with-custom-forecast-date.svg

tests/testthat/_snaps/plot_voc_advantage/default-advantage-plot-with-two-strain.svg

tests/testthat/_snaps/plot_voc_frac/default-voc-plot-with-two-strain.svg

tests/testthat/_snaps/plot_voc_frac/two-strain-voc-plot-all-current-observations.svg

tests/testthat/_snaps/plot_voc_frac/two-strain-voc-plot-with-current-observations.svg

tests/testthat/_snaps/plot_voc_frac/voc-plot-on-natural-scale-with-two-strain.svg

tests/testthat/_snaps/plot_voc_frac/voc-plot-with-custom-forecast-date.svg

vignettes/.gitignore

vignettes/library.bib

vignettes/model-definitions.Rmd

epiforecasts/forecast.vocs documentation built on May 14, 2023, 2 p.m.

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epiforecasts/forecast.vocs
Forecast Case and Sequence Notifications using Variant of Concern Strain Dynamics

Files in epiforecasts/forecast.vocs
Forecast Case and Sequence Notifications using Variant of Concern Strain Dynamics

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epiforecasts/forecast.vocs Forecast Case and Sequence Notifications using Variant of Concern Strain Dynamics

Files in epiforecasts/forecast.vocs Forecast Case and Sequence Notifications using Variant of Concern Strain Dynamics

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epiforecasts/forecast.vocs
Forecast Case and Sequence Notifications using Variant of Concern Strain Dynamics

Files in epiforecasts/forecast.vocs
Forecast Case and Sequence Notifications using Variant of Concern Strain Dynamics