DendroPy

A Python library for phylogenetics and phylogenetic computing: reading, writing, simulation, processing and manipulation of phylogenetic trees (phylogenies) and characters. Current version 5.0.8 (requires Python >=3.7). The library has undergone major API changes from v4 to v5 (e.g., removal of deprecated modules, new tree structure classes). Release cadence is irregular, with v5.0.0 released in late 2023 and subsequent bugfix releases.