Hélène Touzet

The paper develops TNSEEK, a pipeline for analyzing Tn-seq data across multiple bacterial strains, identifying conserved and strain-specific essential genes in Pectobacteriaceae.

PAMPA automates taxonomic identification of ZooMS spectra using peptide markers, improving efficiency and reducing manual effort in archaeology and paleontology.

RNA-tailor identifies transcript isoform diversity at the gene level with high accuracy using long-read sequencing data.

The paper evaluates multiple sequence alignment methods for third-generation sequencing errors using an automated pipeline and finds that performance varies with sequencing depth, genome characteristics, and error patterns.

Porechop_ABI identifies and trims unknown adapters from ONT sequencing reads using approximate k-mers without prior adapter sequence knowledge.

This paper benchmarks long-read error-correction tools on RNA-sequencing data, finding they improve base-pair accuracy but affect gene family sizes and isoform diversity.

MATAM improves taxonomic assignment in metagenomics by accurately assembling short reads into marker genes, outperforming existing methods in error rates and genome recovery.