💎 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.

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

Microbiome data simulator for power analysis

Comparative Metatranscriptomics Workflow

Environmental metagenomics, Spring 2022, Physalia Courses

Environmental metagenomics, Spring 2023, Physalia Courses

lake itag measurements over nineteen years

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.

Easy-to-use tool facilitating work with Mothur.

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

My personal research website

Pipepline for the standard quantification of microbial guilds from metagenomic samples.

Data and code for LaMartina et al., 2021