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: http://www.bio.utexas.edu/research/matz_lab/matzlab/Methods_files/walkthroughExample_mcmcOTU_R.txt.
| Version: |
1.0.10 |
| Depends: |
MCMCglmm, ggplot2, coda |
| Published: |
2016-02-12 |
| Author: |
Mikhail V. Matz |
| Maintainer: |
Mikhail V. Matz <matz at utexas.edu> |
| License: |
GPL-3 |
| NeedsCompilation: |
no |
| CRAN checks: |
MCMC.OTU results |
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