Index

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_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)