Eliot Bush

PHANTASM automates phylogenomic analyses for microbial taxonomy, reconciling NCBI and LPSN databases and producing publication-quality outputs.

The paper extends the DTL model to account for gene family entry outside the species tree and genomic rearrangements, introducing an efficient algorithm for maximum parsimony reconciliation and preliminary integration into a tool for reconstructing genomic island histories.

xenoGI identifies genomic islands in bacterial clades and maps their insertion points on phylogenetic trees to study microbial evolution.