API Reference#

All public symbols are importable directly from physquirrel. This page maps names to their detailed documentation sections.

Where to find what#
Symbol(s)	Page
`SqQuartetProfile`, `SqQuartetProfileSet`	Datatypes
`to_psq()`, `from_psq()`, `to_profile_list()`, `from_profile_list()`	I/O
`squirrel()`, `delta_heuristic()`	Squirrel pipeline
`tstar_tree()`, `bstar()`, `quartet_joining()`, `adapted_quartet_joining()`, `unresolve_tree()`, `split_support()`, `resolve_cycles()`, `sqprofileset_from_network()`, `sqprofileset_similarity()`, `qdistance()`	Internal Algorithm Steps
`delta_heuristic_from_msa()`, `squirrel_from_distances()`, `squirrel_from_msa()`	Convenience Helpers
`optimal_tsp_tour()`, `approximate_tsp_tour()`	TSP Solvers