Index _ | A | B | C | G | H | L | M | P | R | T _ _add_internal_clade() (in module pyccd.transmission_ccd) _add_leaf_clade() (in module pyccd.transmission_ccd) _breath_label_nodes() (in module pyccd.read_nexus) _build_tree_dict_from_clade_splits() (in module pyccd.transmission_ccd) _label_all_nodes() (in module pyccd.label_transmission_history) _label_all_remaining_unknowns() (in module pyccd.label_transmission_history) _label_leaf_and_reachable_nodes() (in module pyccd.label_transmission_history) _label_top_infected_nodes() (in module pyccd.label_transmission_history) A ANCESTRY (pyccd.transmission_ccd.TypeCCD attribute) B BaseClade (class in pyccd.transmission_ccd) BLOCKS (pyccd.transmission_ccd.TypeCCD attribute) C clade (pyccd.transmission_ccd.BaseClade attribute) G get_transmission_ccd_tree_bottom_up() (in module pyccd.transmission_ccd) get_transmission_maps() (in module pyccd.transmission_ccd) H has_block (pyccd.transmission_ccd.TransmissionBlockClade attribute) L label_transmission_tree() (in module pyccd.label_transmission_history) M module pyccd.label_transmission_history pyccd.read_nexus pyccd.transmission_ccd P pyccd.label_transmission_history module pyccd.read_nexus module pyccd.transmission_ccd module R read_nexus_trees() (in module pyccd.read_nexus) recursive_nwk_split_dict() (in module pyccd.transmission_ccd) T transm_ancest (pyccd.transmission_ccd.TransmissionAncestryClade attribute) TransmissionAncestryClade (class in pyccd.transmission_ccd) TransmissionBlockClade (class in pyccd.transmission_ccd) TypeCCD (class in pyccd.transmission_ccd)