microbiome R package
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Updated
Aug 4, 2023 - R
microbiome R package
🦠 A comprehensive R package for deep mining microbiome
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
accessory functions for processing microbial community data
R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
Microbiome Analysis Plotting and Visualization
Mothur procedures for 16S and ITS analysis
The is mostly a wrapper tool using phyloseq and microbiome R packages.
Metagenomics calibration R package
Code to reproduce the analyses from the paper "Benchmarking microbiome transformations favors experimental quantitative approaches to address compositionality and sampling depth biases"
Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
A comprehensive and customizable R package for microbiome analysis.
Do microbiome analysis with dada2 and phyloseq object
Microbiome analysis for phosphate-defense interaction
🌊 16S rRNA microbiome data analysis workflow using DADA2 and R on a high performance cluster using SLURM
Peptide-centric functional enrichment tool
General purpose package containing useful functions for microbiome analysis pipelines
Analyzing microbiome data from Gigante, Barro Colorado, Panama. Part of an Undergraduate Thesis (defended on May 13th, 2022).
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