curatedMetagenomicData
This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see curatedMetagenomicData.
Curated Metagenomic Data of the Human Microbiome
Bioconductor version: 3.12
The curatedMetagenomicData package provides microbial taxonomic, functional, and gene marker abundance for samples collected from different bodysites.
Author: Lucas Schiffer <schiffer.lucas at gmail.com>, Edoardo Pasolli <edoardo.pasolli at unitn.it>, Levi Waldron <lwaldron.research at gmail.com>, Faizan Malik <faizankmalik2012 at yahoo.com>, Nicola Segata <nicola.segata at unitn.it>, Valerie Obenchain <Valerie.Obenchain at roswellpark.org>, Morgan Martin <martin.morgan at roswellpark.org>
Maintainer: Lucas Schiffer <schiffer.lucas at gmail.com>
citation("curatedMetagenomicData")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("curatedMetagenomicData")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("curatedMetagenomicData")| curatedMetagenomicData | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ExperimentData, ExperimentHub, Homo_sapiens_Data, MicrobiomeData, ReproducibleResearch |
| Version | 1.20.0 |
| License | Artistic-2.0 |
| Depends | R (>= 4.0.0), AnnotationHub(>= 2.9.0), Biobase(>= 2.37.0), dplyr (>= 0.5.0), ExperimentHub(>= 1.3.0) |
| Imports | magrittr, methods, S4Vectors, tidyr, utils |
| System Requirements | |
| URL | https://github.com/waldronlab/curatedMetagenomicData |
| Bug Reports | https://github.com/waldronlab/curatedMetagenomicData/issues |
See More
| Suggests | ape, covr, BiocCheck, BiocManager, BiocParallel, BiocStyle, devtools, ggplot2, knitr, metagenomeSeq, phyloseq, readr, RISmed, rmarkdown, roxygen2, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | HMP16SData, lefser, metavizr, MMUPHin |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | curatedMetagenomicData_1.20.0.tar.gz |
| Windows Binary | |
| macOS 10.13 (High Sierra) | |
| Source Repository | git clone https://git.bioconductor.org/packages/curatedMetagenomicData |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/curatedMetagenomicData |
| Package Short Url | https://bioconductor.org/packages/curatedMetagenomicData/ |
| Package Downloads Report | Download Stats |