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#

phyloseq

Here are 49 public repositories matching this topic...

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.

  • UpdatedJun 6, 2024
  • R

16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo:https://ycl6.github.io/16S-Demo/

  • UpdatedJul 19, 2021
  • R

Fantaxtic - Nested Bar Plots for Phyloseq Data

  • UpdatedJul 14, 2024
  • R

Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.

  • UpdatedAug 24, 2022
  • HTML

A model-based visualization method for microbiome data

  • UpdatedMar 29, 2023
  • R

Dadaist2 🟨 Highway to R

  • UpdatedMar 7, 2025
  • HTML

accessory functions for processing microbial community data

  • UpdatedDec 24, 2022
  • R

Tutorials for R

  • UpdatedFeb 15, 2021
  • HTML

📓 Minimal cheatsheet for functions in the phyloseq R package

  • UpdatedMay 8, 2021

Mothur procedures for 16S and ITS analysis

  • UpdatedApr 14, 2022
  • R

How to analyze shotgun metagenomic data with phyloseq - a walkthrough

  • UpdatedDec 15, 2019
  • HTML

Working Demo on 16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Visit repo website for HTML output

  • UpdatedJul 19, 2021
  • R

R scripts used for the analysis of microbiomes associated with stony coral tissue loss disease (SCTLD) in the Florida Reef Tract

  • UpdatedOct 14, 2019
  • R

New to Bioinformatics? Start Here!

  • UpdatedSep 12, 2023
  • Jupyter Notebook

The following codes are focused on microbiome analysis, alpha, beta and relative abundance differences.

  • UpdatedMar 6, 2024
  • R

A quick and user-friendly pipeline to go from raw fastq data from Illumina (paired-end sequencing) to processed ASVs and Taxonomic data.

  • UpdatedJun 3, 2024
  • R

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