microbiome-analysis topic

The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:

opencobra

microbiome R package

microbiome

Qiita - A multi-omics databasing effort

qiita-spots

Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing

grimmlab

A list of R environment based tools for microbiome data exploration, statistical analysis and visualization

microsud

The is mostly a wrapper tool using phyloseq and microbiome R packages.

microsud

Various functions for analysis of microbial community data

Russel88

R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.

david-barnett

Metagenomics calibration R package

mikemc

A comprehensive and customizable R package for microbiome analysis.

vallenderlab