phyloseq: Handling and analysis of high-throughput microbiome census data

phyloseq provides a set of classes and tools to facilitate the import, storage, analysis, and graphical display of microbiome census data.

Package overview README.md Basic storage, access, and manipulation of phylogenetic sequencing data with *phyloseq* Example using Negative Binomial in Microbiome Differential Abundance Testing phyloseq Frequently Asked Questions (FAQ) Vignette for phyloseq: Analysis of high-throughput microbiome census data

Vignettes Man pages API and functions Files

Package details
Author	Paul J. McMurdie <joey711@gmail.com>, Susan Holmes <susan@stat.stanford.edu>, with contributions from Gregory Jordan and Scott Chamberlain
Bioconductor views	Classification Clustering GeneticVariability ImmunoOncology Metagenomics Microbiome MultipleComparison Sequencing
Maintainer	Paul J. McMurdie <joey711@gmail.com>
License	AGPL-3
Version	1.34.0
URL	http://dx.plos.org/10.1371/journal.pone.0061217
Package repository	View on Bioconductor
Installation	Install the latest version of this package by entering the following in R: `if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("phyloseq")`