exmort: All-Cause and Excess Mortality Calculator
An interactive 'shiny' application that estimates all-cause
mortality and excess mortality from country-level weekly or monthly death
counts. Users supply observed deaths and an event calendar (for example
COVID-19 waves or typhoons); the app fits one or more statistical
baseline models (historical average, negative binomial regression,
quasi-Poisson regression, zero-inflated Poisson regression, ARIMA
(autoregressive integrated moving average) and SARIMA (seasonal ARIMA)
models, GAM (generalized additive model) splines, and the model of
Karlinsky and Kobak (2021) <doi:10.7554/eLife.69336>) on a user-defined
baseline period, projects the expected deaths into the post-baseline
period, and reports excess deaths, P-scores (excess deaths as a
percentage of expected deaths) and confidence limits with tables, plots
and downloadable reports. Launch the application with run_app().
| Version: |
0.1.0 |
| Imports: |
base64enc, data.table, dplyr, DT, forecast, ggplot2, ggrepel, htmltools, ISOweek, kableExtra, knitr, lubridate, mgcv, openxlsx, parallel, plotly, reactable, readxl, RColorBrewer, reshape2, rmarkdown, scales, shiny, shinyalert, shinycssloaders, shinyjs, stringr, tibble, tidyr, zoo |
| Suggests: |
officedown, testthat (≥ 3.0.0), tinytex |
| Published: |
2026-07-30 |
| DOI: |
10.32614/CRAN.package.exmort (may not be active yet) |
| Author: |
Shanlong Ding [aut, cre],
World Health Organization Regional Office for the Western Pacific [cph,
fnd] |
| Maintainer: |
Shanlong Ding <dings at who.int> |
| BugReports: |
https://github.com/shanlong-who/exmort/issues |
| License: |
GPL-3 |
| URL: |
https://github.com/shanlong-who/exmort |
| NeedsCompilation: |
no |
| SystemRequirements: |
pandoc (>= 1.14) for report rendering; a LaTeX
installation (for example TinyTeX) is required only for PDF
reports. |
| Language: |
en-GB |
| Materials: |
README, NEWS |
| CRAN checks: |
exmort results |
Documentation:
Downloads:
Linking:
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