CRAN/E | MCMC.OTU

MCMC.OTU

Bayesian Analysis of Multivariate Counts Data in DNA Metabarcoding and Ecology

Installation

About

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: http://www.bio.utexas.edu/research/matz_lab/matzlab/Methods_files/walkthroughExample_mcmcOTU_R.txt.

Key Metrics

Version 1.0.10
Published 2016-02-12 2967 days ago
Needs compilation? no
License GPL-3
CRAN checks MCMC.OTU results

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Maintainer

Maintainer

Mikhail V. Matz

matz@utexas.edu

Authors

Mikhail V. Matz

Material

Reference manual
Package source

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

MCMC.OTU archive

Depends

MCMCglmm
ggplot2
coda