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POUMM
View on CRAN: Click
here
Download and install POUMM package within the R console
Install from CRAN:
install.packages("POUMM")
Install from Github:
library("remotes")
install_github("cran/POUMM")
Install by package version:
library("remotes")
install_version("POUMM", "2.1.7")
Attach the package and use:
library("POUMM")
Maintained by
Venelin Mitov
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.POUMM . https://github.com/venelin/POUMM/issues . https://venelin.github.io/POUMM/index.html . https://github.com/venelin/POUMM . POUMM citation info . POUMM results . POUMM.pdf . Interpreting the POUMM model parameters . A User Guide to The POUMM R-package . POUMM_2.1.7.tar.gz . POUMM_2.1.7.zip . POUMM_2.1.7.zip . POUMM_2.1.7.zip . POUMM_2.1.7.tgz . POUMM_2.1.7.tgz . POUMM_2.1.7.tgz . POUMM_2.1.7.tgz . POUMM archive . https://CRAN.R-project.org/package=POUMM .
First Published: 2017-03-11
Latest Update: 2020-10-27
Description:
The Phylogenetic Ornstein-Uhlenbeck Mixed Model (POUMM) allows to
estimate the phylogenetic heritability of continuous traits, to test
hypotheses of neutral evolution versus stabilizing selection, to quantify
the strength of stabilizing selection, to estimate measurement error and to
make predictions about the evolution of a phenotype and phenotypic variation
in a population. The package implements combined maximum likelihood and
Bayesian inference of the univariate Phylogenetic Ornstein-Uhlenbeck Mixed
Model, fast parallel likelihood calculation, maximum likelihood
inference of the genotypic values at the tips, functions for summarizing and
plotting traces and posterior samples, functions for simulation of a univariate
continuous trait evolution model along a phylogenetic tree. So far, the
package has been used for estimating the heritability of quantitative traits
in macroevolutionary and epidemiological studies, see e.g.
Bertels et al. (2017) and
Mitov and Stadler (2018) . The algorithm for
parallel POUMM likelihood calculation has been published in
Mitov and Stadler (2019) .
How to cite:
Venelin Mitov (2017). POUMM: The Phylogenetic Ornstein-Uhlenbeck Mixed Model. R package version 2.1.7, https://cran.r-project.org/web/packages/POUMM. Accessed 30 Apr. 2025.
Previous versions and publish date:
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View POUMM citation profile
Other R packages that POUMM depends,
imports, suggests or enhances
Complete documentation for POUMM
Functions, R codes and Examples using
the POUMM R package
Some associated functions: H2 . OU . POUMM . POUMMIsADevRelease . PhylogeneticH2 . analyseMCMCs . chld . coef.POUMM . covFunPOUMM . covHPDFunPOUMM . covPOUMM . covVTipsGivenTreePOUMM . dVNodesGivenTreePOUMM . edgesFrom . fitted.POUMM . gPOUMM . likPOUMMGivenTreeVTips . likPOUMMGivenTreeVTipsC . logLik.POUMM . loglik_abc_g0_g0Prior . maxLikPOUMMGivenTreeVTips . mcmcPOUMMGivenPriorTreeVTips . nobs.POUMM . nodeTimes . plot.POUMM . plot.summary.POUMM . pruneTree . rTrajectoryOU . rTrajectoryOUDef . rVNodesGivenTreePOUMM . residuals.POUMM . simulatePOUMMLikelihoodMainLoop . simulateTrait . specPOUMM . statistics . summary.POUMM . validateSpecPOUMM . validateZTree . vignetteCachedResults .
Some associated R codes: POUMM.R . fitPOUMM.R . likPOUMM.R . paramsPOUMM.R . specPOUMM.R . summaryPOUMM.R . utilities.R . vignetteCachedResults.R . Full POUMM package functions and examples
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