Amplicon sequencing analysis workflow using DADA2 and QIIME2

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.

A fast and scalable phylogenetic tree viewer for microbiome data analysis

A Python package for microbiome sequencing analysis with QIIME 2

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

Materials and presentation for the 2022 ISB Microbiome course.

Materials and presentation for the 2023 ISB Microbiome course.

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

A Qiime plugin for MICOM.

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

QIIME2 worklflow. From raw data to a feature table.

Qiime2 Artifact eXtractor

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

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.

Microbiome analysis with QIIME2

Effect size calculations for microbiome data

QIIME2 plugin for PCA analysis of protein sequence phylogeny.

This is a workflow for 16S rRNA analysis.

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