Package: ern 2.1.2
David Champredon
ern: Effective Reproduction Number Estimation
Estimate the effective reproduction number from wastewater and clinical data sources.
Authors:
ern_2.1.2.tar.gz
ern_2.1.2.tar.gz(r-4.7-any)ern_2.1.2.tar.gz(r-4.6-any)
ern_2.1.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
ern/json (API)
| # Install 'ern' in R: |
| install.packages('ern', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:d27f04cecf. Checks:4 OK. Indexed: no.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 191 | ||
| source / vignettes | OK | 219 | ||
| linux-release-x86_64 | OK | 189 | ||
| wasm-release | OK | 117 |
Exports:agg_to_dailydef_distestimate_R_clestimate_R_wwget_discrete_distplot_diagnostic_clplot_diagnostic_wwplot_dist
Dependencies:assertthataweekclicoarseDataToolscodacpp11dplyrEpiEstimfarverfitdistrplusgenericsggplot2gluegridExtragtableincidenceisobandlabelinglatticelifecyclelubridatemagrittrMASSMatrixMatrixModelsmcmcMCMCpackpatchworkpillarpkgconfigplyrpurrrquantregR6RColorBrewerRcppreshape2rjagsrlangrunjagsS7scalesSparseMstringistringrsurvivaltibbletidyrtidyselecttimechangeutf8vctrsviridisLitewithrzoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Infer daily counts from aggregates | agg_to_daily |
| Sample of aggregated clinical reports | cl.data |
| Define a family of distributions. | def_dist |
| Estimate the effective reproduction from clinical report data | estimate_R_cl |
| Estimate the effective reproduction from wastewater concentration data. | estimate_R_ww |
| Extract MCMC chains from a JAGS object | extract_mcmc_values |
| Get a discretized, truncated version of a distribution | get_discrete_dist |
| Daily incidence from linear interpolation | linear_int_daily |
| Diagnostic plot for R estimation from clinical report data | plot_diagnostic_cl |
| Diagnostic plot for R estimation from wastewater data | plot_diagnostic_ww |
| Plot a distribution | plot_dist |
| Plot the Gelman Rubin statistic for all parameters. | plot_gelman_rubin |
| Plot MCMC traces | plot_traces |
| Sample of wastewater concentration | ww.data |
