Index
A
|
B
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
J
|
M
|
N
|
P
|
R
|
S
|
T
A
add_node() (splitp.nx_tree.NXTree method)
adjacency_matrix() (splitp.nx_tree.NXTree method)
all_singular_values() (splitp.nx_tree.NXTree method)
all_splits() (in module splitp.tree_helper_functions)
(splitp.nx_tree.NXTree method)
B
balanced_newick_tree() (in module splitp.tree_helper_functions)
build_JC_matrix() (splitp.nx_tree.NXTree method)
build_K2ST_matrix() (splitp.nx_tree.NXTree method)
C
check_splits_representatives() (in module splitp.tree_helper_functions)
D
draw_from_multinomial() (splitp.nx_tree.NXTree method)
E
evaluate_polynomial() (splitp.squangles.SquangleEvaluator method)
evolve_pattern() (splitp.nx_tree.NXTree method)
F
false_splits() (splitp.nx_tree.NXTree method)
fast_signed_sum_subflattening() (splitp.nx_tree.NXTree method)
fast_sparse_flattening() (splitp.nx_tree.NXTree method)
flattening() (splitp.nx_tree.NXTree method)
frob_norm() (in module splitp.tree_helper_functions)
G
generate_alignment() (splitp.nx_tree.NXTree method)
get_balance() (in module splitp.tree_helper_functions)
get_descendants() (splitp.nx_tree.NXTree method)
get_flattening() (splitp.squangles.SquangleEvaluator method)
get_num_taxa() (splitp.nx_tree.NXTree method)
get_parent() (splitp.nx_tree.NXTree method)
get_pattern_counts() (in module splitp.tree_helper_functions)
get_pattern_probabilities() (splitp.nx_tree.NXTree method)
get_polynomials() (splitp.squangles.SquangleEvaluator method)
get_root() (splitp.nx_tree.NXTree method)
H
hartigan_algorithm() (splitp.nx_tree.NXTree method)
I
index_of_node() (splitp.nx_tree.NXTree method)
is_leaf() (splitp.nx_tree.NXTree method)
is_root() (splitp.nx_tree.NXTree method)
is_sparse() (in module splitp.tree_helper_functions)
J
json_to_newick() (in module splitp.parsers)
M
make_substitution_matrix() (in module splitp.tree_helper_functions)
module
splitp
splitp.nx_tree
splitp.parsers
splitp.squangles
splitp.tree_helper_functions
N
newick_to_json() (in module splitp.parsers)
node_index() (splitp.nx_tree.NXTree method)
node_name() (splitp.nx_tree.NXTree method)
nodes() (splitp.nx_tree.NXTree method)
nodes_list() (splitp.nx_tree.NXTree method)
normalised() (in module splitp.tree_helper_functions)
num_nodes() (splitp.nx_tree.NXTree method)
NXTree (class in splitp.nx_tree)
P
parsimony_score() (splitp.nx_tree.NXTree method)
pattern_counts_to_probs() (in module splitp.tree_helper_functions)
pattern_probs_from_alignment() (in module splitp.tree_helper_functions)
R
rate_matrix() (splitp.nx_tree.NXTree method)
read_alignment_from_file() (in module splitp.tree_helper_functions)
read_polynomial() (splitp.squangles.SquangleEvaluator method)
reassign_all_transition_matrices() (splitp.nx_tree.NXTree method)
S
scale_TR_rate_matrix() (splitp.nx_tree.NXTree method)
scaled_h_matrix() (in module splitp.tree_helper_functions)
scores_to_weights() (in module splitp.tree_helper_functions)
signed_sum_subflattening() (splitp.nx_tree.NXTree method)
sparse_flattening() (splitp.nx_tree.NXTree method)
sparse_subflattening() (splitp.nx_tree.NXTree method)
split_equivalence_classes() (in module splitp.tree_helper_functions)
split_score() (splitp.nx_tree.NXTree method)
splitp
module
splitp.nx_tree
module
splitp.parsers
module
splitp.squangles
module
splitp.tree_helper_functions
module
SquangleEvaluator (class in splitp.squangles)
subflattening() (splitp.nx_tree.NXTree method)
subflattening_alt() (splitp.nx_tree.NXTree method)
svd_error() (splitp.nx_tree.NXTree method)
T
test_pattern_conversion() (splitp.squangles.SquangleEvaluator method)
to_int() (splitp.squangles.SquangleEvaluator method)
to_pattern() (splitp.squangles.SquangleEvaluator method)
transformed_flattening() (splitp.nx_tree.NXTree method)
transformed_prob_dist() (splitp.squangles.SquangleEvaluator method)
true_splits() (splitp.nx_tree.NXTree method)
SplitP
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