coalescentMCMC: MCMC Algorithms for the Coalescent

Flexible framework for coalescent analyses in R. It includes a main function running the MCMC algorithm, auxiliary functions for tree rearrangement, and some functions to compute population genetic parameters. Extended description can be found in Paradis (2020) <doi:10.1201/9780429466700>. For details on the MCMC algorithm, see Kuhner et al. (1995) <doi:10.1093/genetics/140.4.1421> and Drummond et al. (2002) <doi:10.1093/genetics/161.3.1307>.

Version: 0.4-4
Depends: ape, coda, lattice
Imports: Matrix, phangorn, splines, stats, utils
Published: 2022-04-22
Author: Emmanuel Paradis [aut, cre, cph]
Maintainer: Emmanuel Paradis <Emmanuel.Paradis at>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: yes
Citation: coalescentMCMC citation info
Materials: NEWS
In views: Bayesian
CRAN checks: coalescentMCMC results


Reference manual: coalescentMCMC.pdf
Vignettes: Coalescent Models
Running coalescentMCMC


Package source: coalescentMCMC_0.4-4.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): coalescentMCMC_0.4-4.tgz, r-oldrel (arm64): coalescentMCMC_0.4-4.tgz, r-release (x86_64): coalescentMCMC_0.4-4.tgz, r-oldrel (x86_64): coalescentMCMC_0.4-4.tgz
Old sources: coalescentMCMC archive


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