MCMC.OTU: Bayesian Analysis of Multivariate Counts Data in DNA Metabarcoding and Ecology

Poisson-lognormal generalized linear mixed model analysis of multivariate counts data using MCMC, aiming to infer the changes in relative proportions of individual variables. The package was originally designed for sequence-based analysis of microbial communities ("metabarcoding", variables = operational taxonomic units, OTUs), but can be used for other types of multivariate counts, such as in ecological applications (variables = species). The results are summarized and plotted using 'ggplot2' functions. Includes functions to remove sample and variable outliers and reformat counts into normalized log-transformed values for correlation and principal component/coordinate analysis. Walkthrough and examples:

Version: 1.0.10
Depends: MCMCglmm, ggplot2, coda
Published: 2016-02-12
DOI: 10.32614/CRAN.package.MCMC.OTU
Author: Mikhail V. Matz
Maintainer: Mikhail V. Matz <matz at>
License: GPL-3
NeedsCompilation: no
CRAN checks: MCMC.OTU results


Reference manual: MCMC.OTU.pdf


Package source: MCMC.OTU_1.0.10.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): MCMC.OTU_1.0.10.tgz, r-oldrel (arm64): MCMC.OTU_1.0.10.tgz, r-release (x86_64): MCMC.OTU_1.0.10.tgz, r-oldrel (x86_64): MCMC.OTU_1.0.10.tgz
Old sources: MCMC.OTU archive


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