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 (3.21)
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 gmail.com>
citation("MMUPHin")
):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("MMUPHin")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
Reference Manual |
Details
biocViews | BatchEffect, Metagenomics, Microbiome, Software |
Version | 1.21.0 |
In Bioconductor since | BioC 3.10 (R-3.6) (5 years) |
License | MIT + file LICENSE |
Depends | R (>= 3.6) |
Imports | Maaslin2, metafor, fpc, igraph, ggplot2, dplyr, tidyr, stringr, cowplot, utils, stats, grDevices |
System Requirements | glpk (>= 4.57) |
URL |
See More
Suggests | testthat, BiocStyle, knitr, rmarkdown, magrittr, vegan, phyloseq, curatedMetagenomicData, genefilter |
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Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | |
Windows Binary (x86_64) | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/MMUPHin |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MMUPHin |
Package Short Url | https://bioconductor.org/packages/MMUPHin/ |
Package Downloads Report | Download Stats |