STraTUS
Enumeration and Uniform Sampling of Transmission Trees for a Known Phylogeny
For a single, known pathogen phylogeny, provides functions for enumeration of the set of compatible epidemic transmission trees, and for uniform sampling from that set. Optional arguments allow for incomplete sampling with a known number of missing individuals, multiple sampling, and known infection time limits. Always assumed are a complete transmission bottleneck and no superinfection or reinfection. See Hall and Colijn (2019) doi:10.1093/molbev/msz058 for methodology.
- Version1.1.2
- R versionunknown
- LicenseGPL-2
- LicenseGPL-3
- Needs compilation?No
- Last release04/04/2020
Team
Matthew Hall
Caroline Colijn
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Last 30 days
This package has been downloaded 151 times in the last 30 days. Now we're getting somewhere! Enough downloads to populate a lively group chat. The following heatmap shows the distribution of downloads per day. Yesterday, it was downloaded 3 times.
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Last 365 days
This package has been downloaded 2,255 times in the last 365 days. That's enough downloads to impress a room full of undergrads. A commendable achievement indeed. The day with the most downloads was Jul 24, 2024 with 34 downloads.
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- Imports6 packages