https://github.com/kentwait/contagion
Contagion: Simulating Viral Evolution in Epidemics using Networks
https://github.com/kentwait/contagion
evolution simulation virus
Last synced: 5 months ago
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Contagion: Simulating Viral Evolution in Epidemics using Networks
- Host: GitHub
- URL: https://github.com/kentwait/contagion
- Owner: kentwait
- License: apache-2.0
- Created: 2018-05-29T10:39:24.000Z (about 8 years ago)
- Default Branch: master
- Last Pushed: 2018-07-17T04:53:45.000Z (almost 8 years ago)
- Last Synced: 2025-10-01T05:42:55.260Z (9 months ago)
- Topics: evolution, simulation, virus
- Language: Go
- Homepage:
- Size: 329 KB
- Stars: 1
- Watchers: 2
- Forks: 0
- Open Issues: 0
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Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# Contagion
## An Individual-based Model for Simulating Viral Evolution in Epidemics using Networks
Contagion is a new type of forward genetic simulator and disease outbreak simulator specially designed to explicitly model evolution both within- and between-host scales of reference simultaneously. At the within-host level, Contagion simulates the processes of replication, mutation, selection, and drift on viral pathogen sequences. At the host population level, Contagion performs like an epidemic simulator that tracks the infection status of individual hosts and simulates pathogen transmission between hosts conditioned on the available routes present in a given host population.
## Important Notice
Contagion is currently under development and APIs may change.
### Contact
If encounter problems or have questions or feature requests, please feel contact me -
Kent Kawashima
Email: kentkawashima@nig.ac.jp
Twitter: [@kent](https://twitter.com/Kent)
## License
Apache License, Version 2.0
Copyright 2018 Kent Kawashima