Points of Significance: Modeling infectious epidemics
Ottar Bjørnstad¹𝄒², Katriona Shea¹, Martin Krzywinski³, Naomi Altman⁴
- Department of Biology, The Pennsylvania State University, State College, PA, USA.
- Department of Entomology, The Pennsylvania State University, State College, PA, USA.
- Canada’s Michael Smith Genome Sciences Center, Vancouver, British Columbia, Canada.
- Department of Statistics, The Pennsylvania State University, State College, PA, USA.
Explore interactive figures or download the code accompanying the column.
Getting Started
Access remotely
Downloading code
Running locally
Download R Studio and install packages.
install.packages(c("shiny","deSolve","ggplot2","tidyverse","stringr","shinyjs","shinyWidgets"))
Run the app by loading app.R and cliking Run App.
Shiny app authors
-
Martin Krzywinski Coding -
Ottar Bjørnstad Code template and tips
Bugs and comments
Versions
v1.0.0
Initial release.
v1.0.1
Minor text changes and fixed typos.
v1.0.2
UI tweaks.
v1.0.3
Added link to SEIRS column.
v1.0.4
Added link to uncertainty and management column.
v1.0.5
Fixed bug in 1.plot.R that was using tmax instead of timax in the figure legend.
v1.0.6
Fixed bug in 1.plot.R that was showing incorrect value for beta.
Citation
Bjørnstad, O., Shea, K., Krzywinski, M. & Altman, N. Points of Significance: Modelling infectious epidemics. (2020) Nature Methods 17:455-456. (interactive figures, download code)
Related Columns
Bjørnstad, O., Shea, K., Krzywinski, M. & Altman, N. Points of Significance: The SEIRS model for infectious disease dynamics. (2020) Nature Methods 17:557-558. (interactive figures, download code)
Shea, K., Bjørnstad, O., Krzywinski, M. & Altman, N. Points of Significance: Uncertainty and the management of epidemics. (2020) Nature Methods 17 (in press). (interactive figures, download code)
License
This project is licensed under the https://creativecommons.org/licenses/by-nc/4.0/ - see the LICENSE file for details.