Research group BIO-GEOMAP

Our research group develops and improves methods of phylogenetic reconstruction based on mathematical tools, especially algebraic, semi-algebraic and geometrical tools. This involves studying molecular substitution models from a mathematical point of view to guarantee parameter identifiability and to provide model selection tools (including both the evolutionary model and the tree or network selection). Our research lies at the borders of phylogenetic reconstruction, algebraic statistics, algebraic geometry and computational algebra.

We are part of the larger research group GEOMAP: GEOMetry and APplications.

Senior members:

Marta Casanellas

Jesús Fernández-Sánchez

Postdocs:

Roser Homs

Marina Garrote-López

Angelica Torres

Jordi Roca-Lacostena

Previous members (BSc or MSc project, PhD students or postdocs)

Mateusz Michalek

Alessandro Oneto

Anna Magdalena Kedzierska

Esther Ibáñez

Marc Sabaté-Vidales

Joan Carles Pons

Laura Cifuentes Fontanals 

Gustavo Cilleruelo

Raúl Pérez Gonzalo

Alba Puy

Software developed:

• ASAQ (by M. Garrote): algebraic and semi-algebraic phylogenetic recosntruction for quartets
• SAQ (by M. Garrote): semi-algebraic phylogenetic reconstruction for quartets
• Erik+2 (by M. Casanellas and J.Fernández): software for quartet topology reconstruction via invariants.
• SPIn (by A. Kezdierska) software for model selection of evolutionary models via invariants.
• GenNon-h (by A. Kedzierska): software for generating sequences evolving under a (discrete-time) Markov process on a tree with given branch lengths.
• EMPar (by A. Kedzierska) EM for parameter estimation of Markov models on trees