💎 An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

Tools for visualising microbial community amplicon data

Various functions for analysis of microbial community data

Super snazzy online phylogenetic tree viewer with automatic customization using simple, tab-separated text files.

creating hybrid-gene phylogenetic trees for diversity analyses

Materials and presentation for the 2022 ISB Microbiome course.

Materials and presentation for the 2023 ISB Microbiome course.

Metabolic modeling tutorial for EMBO practical course: Metabolite and species dynamics in microbial communities 2022

📦BEEM-Static: An R package for inferring microbial interactions based on Lotka-Volterra models

Comparative Metatranscriptomics Workflow

Microbiome data simulator for power analysis

Environmental metagenomics, Spring 2022, Physalia Courses

lake itag measurements over nineteen years

Environmental metagenomics, Spring 2023, Physalia Courses

Easy-to-use tool facilitating work with Mothur.

A metadata schema for the Minimum Information about Intermicrobial Interaction Data (MIIID) using LinkML

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

My personal research website

A simple package for simulations of microbial growth experiments with realistic sources of error.

Supplemental code of the paper "Environmental selection shapes the formation of near-surface groundwater microbiomes".