padjustOTU

The output of OTUsummary function.

otu.summary

Method of adjustment for multiple comparisons (see ?p.adjust)

method

Collects all p-values from the summary, performs FDR correction (Benjamini-Hochberg),
returns the summary with adjusted p-values.

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.

padjustOTU: Adjusts p-values in the OTU summary for multiple comparisons.

Description

Usage

Arguments

Value

References