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The Cauchy Process can model pulsed continuous trait evolution on phylogenies. The likelihood is tractable, and is used for parameter inference and ancestral trait reconstruction. See Bastide and Didier (2023) <doi:10.1093/sysbio/syad053>.
| Version: | 1.0.3 |
| Depends: | R (≥ 3.5), ape (≥ 5.5) |
| Imports: | methods, robustbase, phylolm (≥ 2.6.5), nloptr, pracma, foreach, doParallel, HDInterval |
| Suggests: | covr, knitr, rmarkdown, spelling, geiger, testthat (≥ 3.0.0) |
| Published: | 2024-10-01 |
| DOI: | 10.32614/CRAN.package.cauphy |
| Author: | Gilles Didier [aut, cph], Paul Bastide [aut, cre] |
| Maintainer: | Paul Bastide <paul.bastide at cnrs.fr> |
| BugReports: | https://github.com/gilles-didier/cauphy/issues |
| License: | GPL (≥ 3) |
| URL: | https://gilles-didier.github.io/cauphy/ |
| NeedsCompilation: | yes |
| Language: | en-US |
| Citation: | cauphy citation info |
| Materials: | README NEWS |
| CRAN checks: | cauphy results |
| Reference manual: | cauphy.pdf |
| Vignettes: |
Example Analysis (source, R code) |
| Package source: | cauphy_1.0.3.tar.gz |
| Windows binaries: | r-devel: cauphy_1.0.3.zip, r-release: cauphy_1.0.3.zip, r-oldrel: cauphy_1.0.3.zip |
| macOS binaries: | r-release (arm64): cauphy_1.0.3.tgz, r-oldrel (arm64): cauphy_1.0.3.tgz, r-release (x86_64): cauphy_1.0.3.tgz, r-oldrel (x86_64): cauphy_1.0.3.tgz |
| Old sources: | cauphy archive |
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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.