Index A | B | C | D | F | G | M | O | P | Q | R | S | T | U A adapted_quartet_joining() (in module physquirrel.algorithms.qjoining) approximate_tsp_tour() (in module physquirrel.algorithms.tsp) B bstar() (in module physquirrel.algorithms.tstar_tree) C circular_ordering (physquirrel.datatypes.sqprofile.SqQuartetProfile property) D delta_heuristic() (in module physquirrel.algorithms.delta_heuristic) delta_heuristic_from_msa() (in module physquirrel.convenience) F from_profile_list() (in module physquirrel.datatypes.io) from_psq() (in module physquirrel.datatypes.io) G get_profile() (physquirrel.datatypes.sqprofileset.SqQuartetProfileSet method) M module physquirrel.algorithms.cycle_resolution physquirrel.algorithms.delta_heuristic physquirrel.algorithms.qdistance physquirrel.algorithms.qjoining physquirrel.algorithms.qsimilarity physquirrel.algorithms.squirrel physquirrel.algorithms.tsp physquirrel.algorithms.tstar_tree physquirrel.algorithms.unresolve_tree physquirrel.convenience physquirrel.datatypes.io physquirrel.datatypes.sqprofile physquirrel.datatypes.sqprofileset O optimal_tsp_tour() (in module physquirrel.algorithms.tsp) P physquirrel.algorithms.cycle_resolution module physquirrel.algorithms.delta_heuristic module physquirrel.algorithms.qdistance module physquirrel.algorithms.qjoining module physquirrel.algorithms.qsimilarity module physquirrel.algorithms.squirrel module physquirrel.algorithms.tsp module physquirrel.algorithms.tstar_tree module physquirrel.algorithms.unresolve_tree module physquirrel.convenience module physquirrel.datatypes.io module physquirrel.datatypes.sqprofile module physquirrel.datatypes.sqprofileset module profiles (physquirrel.datatypes.sqprofileset.SqQuartetProfileSet property) Q quartet_distance_with_partition() (in module physquirrel.algorithms.qdistance) quartet_joining() (in module physquirrel.algorithms.qjoining) R resolve_cycles() (in module physquirrel.algorithms.cycle_resolution) reticulation_leaf (physquirrel.datatypes.sqprofile.SqQuartetProfile property) S split_support() (in module physquirrel.algorithms.unresolve_tree) sqprofileset_from_network() (in module physquirrel.algorithms.qsimilarity) sqprofileset_similarity() (in module physquirrel.algorithms.qsimilarity) SqQuartetProfile (class in physquirrel.datatypes.sqprofile) SqQuartetProfileSet (class in physquirrel.datatypes.sqprofileset) squirrel() (in module physquirrel.algorithms.squirrel) squirrel_from_distances() (in module physquirrel.convenience) squirrel_from_msa() (in module physquirrel.convenience) T to_profile_list() (in module physquirrel.datatypes.io) to_psq() (in module physquirrel.datatypes.io) tstar_tree() (in module physquirrel.algorithms.tstar_tree) U unresolve_tree() (in module physquirrel.algorithms.unresolve_tree)
