cauphy: Trait Evolution on Phylogenies Using the Cauchy Process

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: 1.0.2
Depends: R (≥ 3.5), ape (≥ 5.5)
Imports: methods, robustbase, phylolm, nloptr, pracma, foreach, doParallel, HDInterval
Suggests: covr, knitr, rmarkdown, spelling, geiger, testthat (≥ 3.0.0)
Published: 2023-11-29
DOI: 10.32614/CRAN.package.cauphy
Author: Gilles Didier [aut, cph], Paul Bastide [aut, cre]
Maintainer: Paul Bastide <paul.bastide at>
License: GPL (≥ 3)
NeedsCompilation: yes
Language: en-US
Citation: cauphy citation info
Materials: README NEWS
CRAN checks: cauphy results


Reference manual: cauphy.pdf
Vignettes: Example Analysis


Package source: cauphy_1.0.2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): cauphy_1.0.2.tgz, r-oldrel (arm64): cauphy_1.0.2.tgz, r-release (x86_64): cauphy_1.0.2.tgz, r-oldrel (x86_64): cauphy_1.0.2.tgz
Old sources: cauphy archive


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