Jean Mainguy

NetSyn groups protein sequences by conserved genomic context to identify functional relationships beyond sequence similarity.

Precomputed PPanGGOLiN pangenomes for over 4,600 prokaryotic species (Genome Taxonomy Database clusters), with plasticity regions and modules, downloadable via web, API and command line for projection onto new genomes.

PANORAMA predicts and compares biological systems across species using pangenome graphs, demonstrating effectiveness on Pseudomonas and Enterobacteriaceae genomes.

This paper introduces a nested PCR approach to optimize rpoB metabarcoding for low-concentration and host-associated bacterial DNA, showing improved amplification efficiency without bias.

Binette improves MAG quality by refining bins through set operations and CheckM2 quality assessment.

metagWGS is a workflow for metagenomic analysis using short or long reads, producing high-quality genome bins and comprehensive annotations.