Estimates the evolutionary rate matrix (R) using Markov chain Monte Carlo (MCMC) as described in Caetano and Harmon (2017) <doi:10.1111/2041-210X.12826>. The package has functions to run MCMC chains, plot results, evaluate convergence, and summarize posterior distributions.
| Version: | 1.2.2 |
| Depends: | R (≥ 2.10) |
| Imports: | ape, geiger, coda, corpcor, MASS, phylolm, readr, mvMORPH, Rcpp, ellipse |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | microbenchmark, knitr, rmarkdown, phytools |
| Published: | 2020-02-26 |
| Author: | Daniel Caetano [aut, cre], Luke Harmon [aut] |
| Maintainer: | Daniel Caetano <caetanods1 at gmail.com> |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2.0)] |
| URL: | https://github.com/Caetanods/ratematrix |
| NeedsCompilation: | yes |
| Materials: | README |
| CRAN checks: | ratematrix results |
| Reference manual: | ratematrix.pdf |
| Vignettes: |
Introdution to ratematrix Using prior distributions Set custom starting point |
| Package source: | ratematrix_1.2.2.tar.gz |
| Windows binaries: | r-devel: ratematrix_1.2.2.zip, r-release: ratematrix_1.2.2.zip, r-oldrel: ratematrix_1.2.2.zip |
| macOS binaries: | r-release: ratematrix_1.2.2.tgz, r-oldrel: ratematrix_1.2.2.tgz |
| Old sources: | ratematrix archive |
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