DOI: 10.18129/B9.bioc.curatedMetagenomicData    

Curated Metagenomic Data of the Human Microbiome

Bioconductor version: Release (3.8)

The curatedMetagenomicData package provides microbial taxonomic, functional, and gene marker abundance for samples collected from different bodysites.

Author: Lucas Schiffer <schiffer.lucas at>, Edoardo Pasolli <edoardo.pasolli at>, Levi Waldron <lwaldron.research at>, Faizan Malik <faizankmalik2012 at>, Nicola Segata <nicola.segata at>, Valerie Obenchain <Valerie.Obenchain at>, Morgan Martin <martin.morgan at>

Maintainer: Lucas Schiffer <schiffer.lucas at>

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


To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
BiocManager::install("curatedMetagenomicData", version = "3.8")

For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script curatedMetagenomicData
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biocViews ExperimentData, ExperimentHub, Homo_sapiens_Data, MicrobiomeData, ReproducibleResearch
Version 1.12.3
License Artistic-2.0
Depends R (>= 3.4.0), dplyr (>= 0.5.0), Biobase(>= 2.37.0), ExperimentHub(>= 1.3.0), AnnotationHub(>= 2.9.0)
Imports utils, tidyr, magrittr, methods, S4Vectors
Suggests BiocManager, devtools, roxygen2, testthat, covr, knitr, rmarkdown, BiocCheck, BiocStyle, BiocParallel, readr, RISmed, ggplot2, metagenomeSeq, phyloseq, ape
Depends On Me
Imports Me
Suggests Me HMP16SData, metavizr
Links To Me
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Follow Installation instructions to use this package in your R session.

Source Package curatedMetagenomicData_1.12.3.tar.gz
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