Catherine Matias

Fox predicts host-symbiont co-evolution event rates directly from sequence alignments without tree reconstruction, achieving high accuracy and speed compared to existing methods.

The paper analyzes cophylogeny simulators to compare their assumptions and structural biases in generating synthetic host-symbiont data.

The paper evaluates hypergraph embedding methods for clustering metabolic hypergraphs to capture taxonomy-based features, finding that certain methods outperform others.

PPanGGOLiN partitions pangenome graphs to classify gene families into persistent, cloud, and shell partitions, revealing insights into genome dynamics and diversity.