HMP2Data

DOI: 10.18129/B9.bioc.HMP2Data    

16s rRNA sequencing data from the Human Microbiome Project 2

Bioconductor version: Release (3.10)

HMP2Data is a Bioconductor package of the Human Microbiome Project 2 (HMP2) 16S rRNA sequencing data. Processed data is provided as phyloseq, SummarizedExperiment, and MultiAssayExperiment class objects. Individual matrices and data.frames used for building these S4 class objects are also provided in the package.

Author: John Stansfield <stansfieldjc at vcu.edu>, Mikhail Dozmorov <mikhail.dozmorov at vcuhealth.org>

Maintainer: John Stansfield <stansfieldjc at vcu.edu>

Citation (from within R, enter citation("HMP2Data")):

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("HMP2Data")

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("HMP2Data")

 

HTML R Script HMP2Data
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews ExperimentData, Homo_sapiens_Data, MicrobiomeData, ReproducibleResearch, SequencingData
Version 1.0.0
License Artistic-2.0
Depends R (>= 3.6.0)
Imports AnnotationHub, assertthat, dplyr, ExperimentHub, kableExtra, knitr, magrittr, methods, readr, S4Vectors, SummarizedExperiment, phyloseq, MultiAssayExperiment, data.table
LinkingTo
Suggests Biobase, BiocCheck, BiocManager, BiocStyle, cowplot, devtools, ggplot2, gridExtra, haven, rmarkdown, roxygen2, stats, testthat, tibble, UpSetR
SystemRequirements
Enhances
URL https://github.com/jstansfield0/HMP2Data
BugReports https://github.com/jstansfield0/HMP2Data/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package HMP2Data_1.0.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository git clone https://git.bioconductor.org/packages/HMP2Data
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/HMP2Data
Package Short Url https://bioconductor.org/packages/HMP2Data/
Package Downloads Report Download Stats

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