microbiome R package
The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
🦠 A comprehensive R package for deep mining microbiome
Qiita - A multi-omics databasing effort
A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or through a Shiny application. Written by Janina Reeder and Joseph N. Paulson.
Various functions for analysis of microbial community data
The is mostly a wrapper tool using phyloseq and microbiome R packages.
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
topological data analysis of population-scale microbiomes
Analyses in R and Python Using curatedMetagenomicData
A comprehensive and customizable R package for microbiome analysis.
A Collection of Bioinformatics Projects
Metagenomics calibration R package
Predicting Absolute and Relative Abundance by Modeling Efficiency to Derive Intervals and Concentrations
iMAP v1.0 (Pre-release): Integrated Microbiome Analysis Pipeline
Tools for phylogenetic data analysis including visualization and cluster-computing support.
accessory functions for processing microbial community data
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