Software
DIANA 🎯
GitHub | Under Review at Nature Communications (2026)
Deep Learning Identification and Assessment of Ancient DNA. A tool for authenticating and characterising ancient DNA using deep learning approaches.
MUSET 🌭
GitHub | C++ | Published in Oxford Bioinformatics (2025)
MUSET is a high-performance pipeline for constructing abundance unitig matrices from large collections of sequencing samples (FASTA/FASTQ). It takes a set of input samples and outputs a matrix where rows are unitigs and columns are samples, with each entry representing the average abundance of that unitig’s k-mers in the corresponding sample.
decOM 🗑️🦷
GitHub | Python | Published in Microbiome (2023)
Similarity-based microbial source tracking tool for ancient oral metagenomic samples using k-mer methods.
aKmerBroom 🧹🦷
GitHub | Python | Published in iScience (2023)
A tool for preprocessing and decontaminating ancient DNA samples using Bloom filters on k-mer sets.
Flaski
Flask-based web application for visualisation and analysis of biological data.