Hmsc: Hierarchical Model of Species Communities

Hierarchical Modelling of Species Communities (HMSC) is a model-based approach for analyzing community ecological data. This package implements it in the Bayesian framework with Gibbs Markov chain Monte Carlo (MCMC) sampling (Tikhonov et al. (2020) <doi:10.1111/2041-210X.13345>).

Version: 3.0-11
Depends: R (≥ 3.0.2), coda
Imports: abind, ape, BayesLogit, fields, FNN, ggplot2, MASS, Matrix, matrixStats, MCMCpack, methods, nnet, rlang, parallel, pracma, pROC, sp, statmod, truncnorm
Suggests: R.rsp, testthat, corrplot
Published: 2021-02-24
Author: Gleb Tikhonov [aut], Otso Ovaskainen ORCID iD [aut, cre], Jari Oksanen [aut], Melinda de Jonge [aut], Oystein Opedal [aut], Tad Dallas [aut]
Maintainer: Otso Ovaskainen <otso.ovaskainen at>
License: GPL-3 | file LICENSE
NeedsCompilation: no
Materials: README NEWS
CRAN checks: Hmsc results


Reference manual: Hmsc.pdf
Vignettes: Getting started with HMSC-R: univariate models
Getting started with HMSC-R: low-dimensional multivariate models
Getting started with HMSC-R: high-dimensional multivariate models
Getting started with HMSC-R: spatial models
Testing the performance of Hmsc with simulated data
Package source: Hmsc_3.0-11.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release: Hmsc_3.0-11.tgz, r-oldrel: Hmsc_3.0-9.tgz
Old sources: Hmsc archive


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