Index
A
|
C
|
D
|
E
|
F
|
G
|
I
|
J
|
M
|
N
|
P
|
R
|
S
|
T
|
W
|
Z
A
add_as_sibling() (phylogeny.core.tree.Tree method)
all_quartets() (in module phylogeny.reconstruction.allquartets)
all_quartets_method() (in module phylogeny.reconstruction.allquartets)
C
cfn_metric() (phylogeny.models.cfn.CFN_Tree static method)
CFN_Tree (class in phylogeny.models.cfn)
D
distance_matrix() (phylogeny.core.tree.Tree method)
DistanceMatrix (class in phylogeny.core.distance)
distances_to() (phylogeny.core.distance.DistanceMatrix method)
draw_graph() (in module phylogeny.reconstruction.clocklike1)
E
evolve_traits() (phylogeny.models.cfn.CFN_Tree method)
F
four_point_condition() (in module phylogeny.core.fpc)
four_point_method() (in module phylogeny.reconstruction.allquartets)
fpc_sums() (in module phylogeny.core.fpc)
from_newick() (phylogeny.core.tree.Tree class method)
from_quartet() (phylogeny.core.tree.Tree class method)
from_sequences() (phylogeny.core.distance.DistanceMatrix class method)
from_tree() (phylogeny.core.tree.Tree class method)
G
get() (phylogeny.core.distance.DistanceMatrix method)
get_graph() (in module phylogeny.reconstruction.clocklike1)
get_path() (in module phylogeny.reconstruction.clocklike1)
I
induced_quartet() (in module phylogeny.reconstruction.allquartets)
infer_clocklike_tree1() (in module phylogeny.reconstruction.clocklike1)
infer_clocklike_tree2() (in module phylogeny.reconstruction.clocklike2)
infer_siblings() (in module phylogeny.reconstruction.allquartets)
is_additive() (phylogeny.core.distance.DistanceMatrix method)
J
join_trees() (phylogeny.core.tree.Tree class method)
M
make_cherry_of() (phylogeny.core.tree.Tree class method)
map_names_to_quartet() (in module phylogeny.reconstruction.allquartets)
max_edge_weight() (in module phylogeny.reconstruction.clocklike1)
N
name_all() (phylogeny.core.distance.DistanceMatrix method)
P
path_to_tree() (in module phylogeny.reconstruction.clocklike1)
phylogeny (module)
phylogeny.core (module)
phylogeny.core.distance (module)
phylogeny.core.fpc (module)
phylogeny.core.tree (module)
phylogeny.models (module)
phylogeny.models.cfn (module)
phylogeny.reconstruction (module)
phylogeny.reconstruction.allquartets (module)
phylogeny.reconstruction.clocklike1 (module)
phylogeny.reconstruction.clocklike2 (module)
populate() (phylogeny.models.cfn.CFN_Tree method)
prune_leaves() (phylogeny.core.tree.Tree method)
R
random_test() (in module phylogeny.models.cfn)
remove() (phylogeny.core.distance.DistanceMatrix method)
replace_node() (phylogeny.core.tree.Tree static method)
S
set() (phylogeny.core.distance.DistanceMatrix method)
show() (phylogeny.core.tree.Tree method)
simple_distance() (in module phylogeny.core.distance)
swap() (in module phylogeny.models.cfn)
T
total_nodes() (phylogeny.core.tree.Tree method)
trait_traverse() (phylogeny.models.cfn.CFN_Tree method)
Tree (class in phylogeny.core.tree)
tree_from_quartets() (in module phylogeny.reconstruction.allquartets)
W
weights_for() (in module phylogeny.reconstruction.clocklike1)
Z
zeros() (phylogeny.core.distance.DistanceMatrix class method)
Phylogeny
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