Damien M. de Vienne

The paper shows that horizontal gene transfers can reveal information about extinct and unsampled lineages in species trees through gene tree analysis.

pylifemap maps biological data onto the NCBI Taxonomy tree, enabling interactive visualization of datasets like the IUCN Red List and metagenomics results.

This paper shows that horizontal gene transfer methods can detect ghost lineages in phylogenies, revealing hidden diversity despite lack of genomic data.

The paper investigates the link between endoparasitoid lifestyle and the endogenization and domestication of dsDNA viruses in Hymenoptera genomes.

Zombi simulates species, genomes, and sequences evolution, including extinct lineages and speciation/extinction rate variations.

The paper shows overtraining in maximum likelihood species tree reconstruction leads to topologically incorrect trees, and identifies likelihood curve shape as a guide for optimal stopping.