microbiome R package
This repo contains the R microshades package, which contains a color blind accessible color palette with 30 unique colors and functions for applying these colors to microbiome data.
16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo/
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.
Fantaxtic - Nested Bar Plots for Phyloseq Data
A comprehensive and customizable R package for microbiome analysis.
A model-based visualization method for microbiome data
Dadaist2 🟨 Highway to R
accessory functions for processing microbial community data
Mothur procedures for 16S and ITS analysis
📓 Minimal cheatsheet for functions in the phyloseq R package
How to analyze shotgun metagenomic data with phyloseq - a walkthrough
Working Demo on 16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Visit repo website for HTML output
Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.
R scripts used for the analysis of microbiomes associated with stony coral tissue loss disease (SCTLD) in the Florida Reef Tract
New to Bioinformatics? Start Here!
A quick and user-friendly pipeline to go from raw fastq data from Illumina (paired-end sequencing) to processed ASVs and Taxonomic data.
The following codes are focused on microbiome analysis, alpha, beta and relative abundance differences.
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