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HMP2Data

16s rRNA sequencing data from the Human Microbiome Project 2

Bioconductor version: 3.23 · Package version: 1.25.0

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.

Installation

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

BiocManager::install("HMP2Data")

Details

MaintainerJohn Stansfield <stansfieldjc@vcu.edu>, Ekaterina Smirnova <ekaterina.smirnova@vcuhealth.org>
AuthorJohn Stansfield <stansfieldjc@vcu.edu>, Ekaterina Smirnova <ekaterina.smirnova@vcuhealth.org>, Ni Zhao <nzhao10@jhu.edu>, Jennifer Fettweis <jennifer.fettweis@vcuhealth.org>, Levi Waldron <levi.waldron@sph.cuny.edu>, Mikhail Dozmorov <mikhail.dozmorov@vcuhealth.org>
LicenseArtistic-2.0
URLhttps://github.com/jstansfield0/HMP2Data
Bug Reportshttps://github.com/jstansfield0/HMP2Data/issues
Downloads rank217
Source branchRELEASE_3_23
biocViewsExperimentData, Homo_sapiens_Data, MicrobiomeData, ReproducibleResearch, SequencingData

Download

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

Source packageHMP2Data_1.25.0.tar.gz
Dependencies

Depends: R (>= 3.6.0)

Imports: AnnotationHub, assertthat, dplyr, ExperimentHub, kableExtra, knitr, magrittr, methods, readr, S4Vectors, SummarizedExperiment, phyloseq, MultiAssayExperiment, data.table

Suggests: Biobase, BiocCheck, BiocManager, BiocStyle, cowplot, devtools, ggplot2, gridExtra, haven, rmarkdown, roxygen2, stats, testthat, tibble, UpSetR