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The 'tsgc' package provides comprehensive tools for the analysis and forecasting of epidemic trajectories. It is designed to model the progression of an epidemic over time while accounting for the various uncertainties inherent in real-time data. Underpinned by a dynamic Gompertz model, the package adopts a state space approach, using the Kalman filter for flexible and robust estimation of the non-linear growth pattern commonly observed in epidemic data. The reinitialization feature enhances the model’s ability to adapt to the emergence of new waves. The forecasts generated by the package are of value to public health officials and researchers who need to understand and predict the course of an epidemic to inform decision-making. Beyond its application in public health, the package is also a useful resource for researchers and practitioners in fields where the trajectories of interest resemble those of epidemics, such as innovation diffusion. The package includes functionalities for data preprocessing, model fitting, and forecast visualization, as well as tools for evaluating forecast accuracy. The core methodologies implemented in 'tsgc' are based on well-established statistical techniques as described in Harvey and Kattuman (2020) <doi:10.1162/99608f92.828f40de>, Harvey and Kattuman (2021) <doi:10.1098/rsif.2021.0179>, and Ashby, Harvey, Kattuman, and Thamotheram (2024) <https://www.jbs.cam.ac.uk/wp-content/uploads/2024/03/cchle-tsgc-paper-2024.pdf>.
| Version: | 0.0 |
| Depends: | R (≥ 2.10) |
| Imports: | KFAS, xts, ggplot2, ggthemes, zoo, magrittr, scales, dplyr, tidyr, methods |
| Suggests: | ggfortify, knitr, RColorBrewer, rmarkdown, ggforce, gridExtra, latex2exp, here, timetk, testthat, purrr, kableExtra |
| Published: | 2024-08-26 |
| DOI: | 10.32614/CRAN.package.tsgc |
| Author: | Craig Thamotheram [aut, cre] |
| Maintainer: | Craig Thamotheram <cpt at tacindex.com> |
| BugReports: | https://github.com/Craig-PT/tsgc/issues |
| License: | GPL (≥ 3) |
| URL: | https://github.com/Craig-PT/tsgc |
| NeedsCompilation: | no |
| Materials: | README NEWS |
| In views: | TimeSeries |
| CRAN checks: | tsgc results |
| Reference manual: | tsgc.pdf |
| Vignettes: |
Forecasting epidemic trajectories: Time Series Growth Curves package 'tsgc' (source, R code) |
| Package source: | tsgc_0.0.tar.gz |
| Windows binaries: | r-devel: tsgc_0.0.zip, r-release: tsgc_0.0.zip, r-oldrel: tsgc_0.0.zip |
| macOS binaries: | r-release (arm64): tsgc_0.0.tgz, r-oldrel (arm64): tsgc_0.0.tgz, r-release (x86_64): tsgc_0.0.tgz, r-oldrel (x86_64): tsgc_0.0.tgz |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.