MicrobiomeProfiler

An R/shiny package for microbiome functional enrichment analysis

Bioconductor version: 3.24 · Package version: 1.19.2

This is an R/shiny package to perform functional enrichment analysis for microbiome data. This package was based on clusterProfiler. Moreover, MicrobiomeProfiler support KEGG enrichment analysis, COG enrichment analysis, Microbe-Disease association enrichment analysis, Metabo-Pathway analysis.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("MicrobiomeProfiler")

Details

Maintainer	Guangchuang Yu <guangchuangyu@gmail.com>
Author	Guangchuang Yu [cre, aut] (ORCID: <https://orcid.org/0000-0002-6485-8781>), Meijun Chen [aut] (ORCID: <https://orcid.org/0000-0003-2486-8106>)
License	GPL-2
URL	https://github.com/YuLab-SMU/MicrobiomeProfiler/, https://yulab-smu.top/contribution-knowledge-mining/
Bug Reports	https://github.com/YuLab-SMU/MicrobiomeProfiler/issues
Downloads rank	397
Source branch	devel
biocViews	KEGG, Microbiome, Software, Visualization

Documentation

Introduction to MicrobiomeProfiler

Download

Follow the installation instructions to use this package in your R session.

Source package	MicrobiomeProfiler_1.19.2.tar.gz
Windows binary (x86_64)	MicrobiomeProfiler_1.19.2.zip
macOS binary (arm64)	MicrobiomeProfiler_1.19.2.tgz
macOS binary (x86_64)	MicrobiomeProfiler_1.19.2.tgz

Dependencies

Depends: R (>= 4.2.0)

Imports: clusterProfiler (>= 4.5.2), enrichit (>= 0.2.2), config, digest, DT, enrichplot, golem, gson, methods, magrittr, jsonlite, shiny (>= 1.6.0), shinyWidgets, shinycustomloader, htmltools, ggplot2, graphics, stats, utils, yulab.utils

Suggests: rmarkdown, pkgload, knitr, testthat (>= 3.0.0), prettydoc