Crandore Hub

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.

Versions across snapshots

VersionRepositoryFileSize
1.1.2 rolling linux/jammy R-4.5 STraTUS_1.1.2.tar.gz 15.3 KiB
1.1.2 rolling linux/noble R-4.5 STraTUS_1.1.2.tar.gz 15.3 KiB
1.1.2 rolling source/ R- STraTUS_1.1.2.tar.gz 15.3 KiB
1.1.2 latest linux/jammy R-4.5 STraTUS_1.1.2.tar.gz 15.3 KiB
1.1.2 latest linux/noble R-4.5 STraTUS_1.1.2.tar.gz 15.3 KiB
1.1.2 latest source/ R- STraTUS_1.1.2.tar.gz 15.3 KiB
1.1.2 2026-04-26 source/ R- STraTUS_1.1.2.tar.gz 15.3 KiB
1.1.2 2026-04-23 source/ R- STraTUS_1.1.2.tar.gz 15.3 KiB
1.1.2 2025-04-20 source/ R- STraTUS_1.1.2.tar.gz 15.3 KiB

Dependencies (latest)

Imports