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pcmabc (version 1.1.3)

Approximate Bayesian Computations for Phylogenetic Comparative Methods

Description

Fits by ABC, the parameters of a stochastic process modelling the phylogeny and evolution of a suite of traits following the tree. The user may define an arbitrary Markov process for the trait and phylogeny. Importantly, trait-dependent speciation models are handled and fitted to data. See K. Bartoszek, P. Lio' (2019) . The suggested geiger package can be obtained from CRAN's archive , suggested to take latest version. Otherwise its required code is present in the pcmabc package. The suggested distory package can be obtained from CRAN's archive , suggested to take latest version.

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Version

Install

install.packages('pcmabc')

Monthly Downloads

200

Version

1.1.3

License

GPL (>= 2) | file LICENCE

Maintainer

Krzysztof Bartoszek

Last Published

May 9th, 2022

Functions in pcmabc (1.1.3)

get_phylogenetic_sample

Retrieve contemporary sample
pcmabc-package

Approximate Bayesian Computations for Phylogenetic Comparative Methods
draw_phylproc

Plots the trajectory of the stochastic process that evolved on the phylogeny.
PCM_ABC

ABC estimation for PCMs
simulate_sde_on_branch

Simulate a stochastic differential equation on a branch. using the yuima
simulate_phylproc

Simultaneously simulate a phylogeny and a trait evolving on it.
simulate_phenotype_on_tree

Simulate a stochastic process on top of a phylogeny.