qiime2

biocore/gemelli

Gemelli is a tool box for running Robust Aitchison PCA (RPCA), Joint Robust Aitchison PCA (Joint-RPCA), TEMPoral TEnsor Decomposition (TEMPTED), and Compositional Tensor Factorization (CTF) on sparse compositional omics datasets.

biocore/empress

A fast and scalable phylogenetic tree viewer for microbiome data analysis

sbslee/dokdo

A Python package for microbiome sequencing analysis with QIIME 2

cafferychen777/MicrobiomeStat

Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat

Gibbons-Lab/isb_course_2022

Materials and presentation for the 2022 ISB Microbiome course.

Gibbons-Lab/isb_course_2023

Materials and presentation for the 2023 ISB Microbiome course.

olabiyi/snakemake-workflow-qiime2

Snakemake pipeline for 16S, 18S and ITS metagenomics using qiime2

micom-dev/q2-micom

A Qiime plugin for MICOM.

mghotbi/DspikeIn

The importance of converting relative to absolute abundance in the context of microbial ecology: Introducing the user-friendly DspikeIn R package

biomarv/16S-rRNA-gene-analysis-using-QIIME2

QIIME2 worklflow. From raw data to a feature table.

EmoryIntegratedComputationalCore/Methods

Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.

telatin/qax

Qiime2 Artifact eXtractor

BryanAbuchery/16S-rRNA-End-to-End-Analysis

Qiime2 and DADA2 are one of the latest bioinformatics tools used in 16S RNA analysis. The current Qiime2 and DADA2 pipelines support End to End 16S RNA analysis, among other analyses.

gibsramen/evident_

Effect size calculations for microbiome data

PlantGGHLab/qiime2-nf

Microbiome analysis with QIIME2

bokulich-lab/q2-protein-pca

QIIME2 plugin for PCA analysis of protein sequence phylogeny.

caporaso-lab/q2-boots

q2-boots: bootstrapped and rarefaction-based alpha and beta diversity analyses 🥾

leylabmpi/qiime_2_ll_quick_viewer

mbbu/16S-mini-project

This is a workflow for 16S rRNA analysis.

yjiakang/amplicon

amplicon pipeline

bioinfonupeb/redemicro-ana-flavia-nutri

Metagenomic analysis of the project: "PROGRAMAÇÃO METABÓLICA INDUZIDA PELA SUPERLACTAÇÃO E SEUS EFEITOS NA ATIVAÇÃO DO INFLAMASSOMA NLRP3 E EXPRESSÃO DO MIR-155 EM MODELO EXPERIMENTAL DE RESISTÊNCIA À INSULINA"

Elcornevic/metaRdum

Welcome to 'Metagenomics in R for Dummies'! Are you interested in learning the essentials of metagenomics in a short period of time? You've reached the right repos!

focussash/MiCoMo-Manuscript

Files for the MiCoMo project and manuscript

johannabosch/Microbiome-Analysis-Using-Clusters

This is a 16S amplicon analysis for visualizing microbiome data using QIIME, QIIME2R and Phyloseq. DNA was isolated fom both sediment cores and seabird fecal samples for this analysis.

rjstevick/NBayTNCoystersAnalysis

Scripts for analysis of metatranscriptomic and 16S rRNA amplicon data from wild oysters in Narragansett Bay

Zubair2021/16S_Microbiome_Analysis

This repository provides scripts for the 16S microbiome analysis and metagenome prediction using linux and R-Studio

bioinfonupeb/microbiota_da_mulher_lbbm

Projeto de análise metagenômica e metabolômica da microbiota de mulheres no climatério - LBBM UFOP

biota-inc/q2-shared_asv

q2-shared_asv is a QIIME 2 plugin for shared ASV analysis.

FranckLejzerowicz/microbiome_analyzer

Command line tool that writes commands to run one by one to perform analyses (mainly using qiime2) on a HPC running Slurm, Torque or none of these.

HSapers/q2-decontam

qiime2 decontam plugin

natmurad/amplicon16S

Analysis for amplicon data

noriakis/q2-pathway

QIIME 2 plugin for analyzing biological pathway information based on gene family abundances

ohmeta/qiimepi

Snakemake version of QIIME2

SergioAlias/sporeflow

🦠 SporeFlow: ITS and 16S metataxonomics pipeline

sPuntinG/Galaxea_Microbiome_PCI

Code and raw data for *Galaxea fascicularis* microbiome data analysis