DOI: 10.18129/B9.bioc.MMUPHin  

This is the development version of MMUPHin; for the stable release version, see MMUPHin.

Meta-analysis Methods with Uniform Pipeline for Heterogeneity in Microbiome Studies

Bioconductor version: Development (3.18)

MMUPHin is an R package for meta-analysis tasks of microbiome cohorts. It has function interfaces for: a) covariate-controlled batch- and cohort effect adjustment, b) meta-analysis differential abundance testing, c) meta-analysis unsupervised discrete structure (clustering) discovery, and d) meta-analysis unsupervised continuous structure discovery.

Author: Siyuan Ma

Maintainer: Siyuan MA <syma.research at>

Citation (from within R, enter citation("MMUPHin")):


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biocViews BatchEffect, Metagenomics, Microbiome, Software
Version 1.15.0
In Bioconductor since BioC 3.10 (R-3.6) (3.5 years)
License MIT + file LICENSE
Depends R (>= 3.6)
Imports Maaslin2, metafor, fpc, igraph, ggplot2, dplyr, tidyr, stringr, cowplot, utils, stats, grDevices
Suggests testthat, BiocStyle, knitr, rmarkdown, magrittr, vegan, phyloseq, curatedMetagenomicData, genefilter
SystemRequirements glpk (>= 4.57)
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