PhylomeDB is a public database for complete
collections of gene phylogenies (phylomes). It allows
users to interactively explore the evolutionary
history of genes through the visualization of
phylogenetic trees and multiple sequence
alignments. Moreover, phylomeDB provides genome-wide
orthology and paralogy predictions which are based on
the analysis of the phylogenetic trees. The automated
pipeline used to reconstruct trees aims at providing a
high-quality phylogenetic analysis of different
genomes , including Maximum Likelihood or Bayesian tree
inference, alignment trimming and evolutionary model
testing. PhylomeDB includes also a public download
section with the complete set of trees, alignments and
orthology predictions.
