Make Picrust2 Output Analysis and Visualization Easier
-
Updated
Nov 28, 2024 - R
Make Picrust2 Output Analysis and Visualization Easier
A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
Python package to study microbial communities using metabolic modeling.
16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo/
Course material for OPEN & REPRODUCIBLE MICROBIOME DATA ANALYSIS SPRING SCHOOL
Open-source opinionated Galaxy-based framework for microbiota analysis
The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
RiboTaxa: combined approaches for rRNA genes taxonomic resolution down to the species level from metagenomics data revealing novelties.
📓 Minimal cheatsheet for functions in the phyloseq R package
Working Demo on 16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Visit repo website for HTML output
Improved bee microbiota characterization using routine 16S rRNA gene sequencing 🐝🧬
Meta-analysis on human gut microbiota in Colorectal cancer
Data and analysis code for the Indian gut microbiota study
biomeUtils is Module-01 of the RIVM-ToolBox. R pkg with common utilities for microbiome research done at the RIVM.
Microbiome Study of Lupus Patients
Code for reproducing results in the paper: "Differential response of digesta- and mucosa-associated intestinal microbiota to dietary insect meal during the seawater phase of Atlantic salmon"
A quick and user-friendly pipeline to go from raw fastq data from Illumina (paired-end sequencing) to processed ASVs and Taxonomic data.
Calculate Peak-to-Trough Ratio (PTR), plot coverage graph, and perform quality control over contigs in a single pipeline integrating Glimmer3, Bowtie2, Sickle, and algorithms in R.
Add a description, image, and links to the microbiota topic page so that developers can more easily learn about it.
To associate your repository with the microbiota topic, visit your repo's landing page and select "manage topics."