PhyloCorrelate: inferring bacterial gene–gene functional associations through large-scale phylogenetic profiling

MOTIVATION: Statistical detection of co-occurring genes across genomes, known as 'phylogenetic profiling', is a powerful bioinformatic technique for inferring gene-gene functional associations. However, this can be a challenging task given the size and complexity of phylogenomic databases, difficulty in accounting for phylogenetic structure, inconsistencies in genome annotation and substantial computational requirements. RESULTS: We introduce …