Pierre Barbera

The paper develops a cloud computing infrastructure for petabase-scale sequence alignment, identifying over 105 novel RNA viruses and expanding known species by an order of magnitude.

SCRAPP quantifies microbial sample diversity using phylogenetic placements and clustering, outperforming existing methods on empirical data.

The paper introduces GENESIS and GAPPA, tools for processing and analyzing phylogenetic data, offering efficiency and flexibility.

The paper introduces methods to automate reference phylogeny construction, enable large-scale phylogenetic placements on nested trees, and preprocess huge sequence datasets, improving speed and accuracy.

The paper introduces EPA-O_SCPLOWNGC_SCPLOW, a faster and more scalable phylogenetic placement algorithm for metagenomic data, outperforming existing methods by up to 30 times in sequential mode.

The paper presents two open-source implementations of the TKF91 algorithm, developed by students as part of a programming course, showing identical results with minor numerical differences.