The hardware and bandwidth for this mirror is donated by dogado GmbH, the Webhosting and Full Service-Cloud Provider. Check out our Wordpress Tutorial.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]dogado.de.
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.
| Version: | 1.1.2 |
| Depends: | R (≥ 3.4) |
| Imports: | ape, phangorn, igraph, gmp, ggplot2, ggtree (≥ 2.0.0), RcppAlgos, stats |
| Published: | 2020-04-04 |
| DOI: | 10.32614/CRAN.package.STraTUS |
| Author: | Matthew Hall [aut, cre], Caroline Colijn [ctb] |
| Maintainer: | Matthew Hall <matthew.hall at bdi.ox.ac.uk> |
| License: | GPL-2 | GPL-3 [expanded from: GPL] |
| URL: | http://github.com/mdhall272/STraTUS/ |
| NeedsCompilation: | no |
| CRAN checks: | STraTUS results |
| Reference manual: | STraTUS.pdf |
| Package source: | STraTUS_1.1.2.tar.gz |
| Windows binaries: | r-devel: STraTUS_1.1.2.zip, r-release: STraTUS_1.1.2.zip, r-oldrel: STraTUS_1.1.2.zip |
| macOS binaries: | r-release (arm64): STraTUS_1.1.2.tgz, r-oldrel (arm64): STraTUS_1.1.2.tgz, r-release (x86_64): STraTUS_1.1.2.tgz, r-oldrel (x86_64): STraTUS_1.1.2.tgz |
| Old sources: | STraTUS archive |
Please use the canonical form https://CRAN.R-project.org/package=STraTUS to link to this page.
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.
Health stats visible at Monitor.