tskit
0.3
Contents:
Introduction
Installation
Python API
Statistics
C API
Command line interface
Data model
Metadata
Combinatorics
Provenance
Development
Tutorial
Changelogs
tskit
»
Index
Edit on GitHub
Index
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A
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B
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C
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D
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E
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F
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G
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H
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I
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K
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L
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M
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N
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P
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R
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S
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T
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U
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V
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W
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Y
_
__getitem__() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.SiteTable method)
_tsk_table_sorter_t (C struct)
_tsk_table_sorter_t.site_id_map (C var)
_tsk_table_sorter_t.sort_edges (C var)
_tsk_table_sorter_t.tables (C var)
_tsk_table_sorter_t.user_data (C var)
A
add_row() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.ProvenanceTable method)
(tskit.SiteTable method)
all_tree_labellings() (in module tskit)
all_tree_shapes() (in module tskit)
all_trees() (in module tskit)
allele_frequency_spectrum() (tskit.TreeSequence method)
ALLELES_ACGT (in module tskit)
append_columns() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.ProvenanceTable method)
(tskit.SiteTable method)
as_dict_of_dicts() (tskit.Tree method)
asdict() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.ProvenanceTable method)
(tskit.SiteTable method)
(tskit.TableCollection method)
aslist() (tskit.TreeSequence method)
at() (tskit.TreeSequence method)
at_index() (tskit.TreeSequence method)
B
branch_length() (tskit.Tree method)
breakpoints() (tskit.TreeSequence method)
build_index() (tskit.TableCollection method)
C
children() (tskit.Tree method)
clear() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.ProvenanceTable method)
(tskit.SiteTable method)
(tskit.TableCollection method)
(tskit.Tree method)
coiterate() (tskit.TreeSequence method)
compute_mutation_parents() (tskit.TableCollection method)
compute_mutation_times() (tskit.TableCollection method)
copy() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.ProvenanceTable method)
(tskit.SiteTable method)
(tskit.TableCollection method)
(tskit.Tree method)
count_topologies() (tskit.Tree method)
(tskit.TreeSequence method)
D
decode_row() (tskit.MetadataSchema method)
deduplicate_sites() (tskit.TableCollection method)
delete_intervals() (tskit.TableCollection method)
(tskit.TreeSequence method)
delete_sites() (tskit.TableCollection method)
(tskit.TreeSequence method)
depth() (tskit.Tree method)
divergence() (tskit.TreeSequence method)
diversity() (tskit.TreeSequence method)
draw() (tskit.Tree method)
draw_svg() (tskit.Tree method)
(tskit.TreeSequence method)
drop_index() (tskit.TableCollection method)
dump() (tskit.TableCollection method)
(tskit.TreeSequence method)
dump_tables() (tskit.TreeSequence method)
dump_text() (tskit.TreeSequence method)
E
Edge (class in tskit)
edge() (tskit.TreeSequence method)
edge_diffs() (tskit.TreeSequence method)
edges() (tskit.TreeSequence method)
EdgeTable (class in tskit)
encode_row() (tskit.MetadataSchema method)
equals() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.ProvenanceTable method)
(tskit.SiteTable method)
(tskit.TableCollection method)
(tskit.TreeSequence method)
F
f2() (tskit.TreeSequence method)
f3() (tskit.TreeSequence method)
f4() (tskit.TreeSequence method)
first() (tskit.Tree method)
(tskit.TreeSequence method)
FORWARD (in module tskit)
Fst() (tskit.TreeSequence method)
G
genealogical_nearest_neighbours() (tskit.TreeSequence method)
general_stat() (tskit.TreeSequence method)
generate_balanced() (tskit.Tree static method)
generate_comb() (tskit.Tree static method)
generate_random() (tskit.Tree static method)
generate_star() (tskit.Tree static method)
genetic_relatedness() (tskit.TreeSequence method)
genotype_matrix() (tskit.TreeSequence method)
H
haplotypes() (tskit.TreeSequence method)
has_index() (tskit.TableCollection method)
I
index() (tskit.Tree property)
Individual (class in tskit)
individual() (tskit.TreeSequence method)
individuals() (tskit.TreeSequence method)
IndividualTable (class in tskit)
Interval (class in tskit)
interval() (tskit.Tree property)
is_descendant() (tskit.Tree method)
is_internal() (tskit.Tree method)
is_isolated() (tskit.Tree method)
is_leaf() (tskit.Tree method)
is_sample() (tskit.Node method)
(tskit.Tree method)
K
kc_distance() (tskit.Tree method)
(tskit.TreeSequence method)
keep_intervals() (tskit.TableCollection method)
(tskit.TreeSequence method)
L
last() (tskit.Tree method)
(tskit.TreeSequence method)
LdCalculator (class in tskit)
leaves() (tskit.Tree method)
left_child() (tskit.Tree method)
left_root() (tskit.Tree property)
left_sib() (tskit.Tree method)
link_ancestors() (tskit.TableCollection method)
load() (in module tskit)
load_text() (in module tskit)
ltrim() (tskit.TableCollection method)
(tskit.TreeSequence method)
M
map_mutations() (tskit.Tree method)
max_root_time() (tskit.TreeSequence property)
mean_descendants() (tskit.TreeSequence method)
metadata() (tskit.TableCollection property)
(tskit.TreeSequence property)
metadata_bytes() (tskit.TableCollection property)
metadata_schema() (tskit.EdgeTable property)
(tskit.IndividualTable property)
(tskit.MigrationTable property)
(tskit.MutationTable property)
(tskit.NodeTable property)
(tskit.PopulationTable property)
(tskit.SiteTable property)
(tskit.TableCollection property)
(tskit.TreeSequence property)
MetadataSchema (class in tskit)
Migration (class in tskit)
migration() (tskit.TreeSequence method)
migrations() (tskit.TreeSequence method)
MigrationTable (class in tskit)
MISSING_DATA (in module tskit)
mrca() (tskit.Tree method)
Mutation (class in tskit)
mutation() (tskit.TreeSequence method)
mutations() (tskit.Tree method)
(tskit.TreeSequence method)
MutationTable (class in tskit)
N
name_map() (tskit.TableCollection property)
nbytes() (tskit.EdgeTable property)
(tskit.IndividualTable property)
(tskit.MigrationTable property)
(tskit.MutationTable property)
(tskit.NodeTable property)
(tskit.PopulationTable property)
(tskit.ProvenanceTable property)
(tskit.SiteTable property)
(tskit.TableCollection property)
(tskit.TreeSequence property)
newick() (tskit.Tree method)
next() (tskit.Tree method)
Node (class in tskit)
node() (tskit.TreeSequence method)
NODE_IS_SAMPLE (in module tskit)
nodes() (tskit.Tree method)
(tskit.TreeSequence method)
NodeTable (class in tskit)
NULL (in module tskit)
num_children() (tskit.Tree method)
num_edges() (tskit.TreeSequence property)
num_individuals() (tskit.TreeSequence property)
num_migrations() (tskit.TreeSequence property)
num_mutations() (tskit.Tree property)
(tskit.TreeSequence property)
num_nodes() (tskit.Tree property)
(tskit.TreeSequence property)
num_populations() (tskit.TreeSequence property)
num_provenances() (tskit.TreeSequence property)
num_roots() (tskit.Tree property)
num_samples() (tskit.Tree method)
(tskit.TreeSequence property)
num_sites() (tskit.Tree property)
(tskit.TreeSequence property)
num_tracked_samples() (tskit.Tree method)
num_trees() (tskit.TreeSequence property)
P
pack_bytes() (in module tskit)
pack_strings() (in module tskit)
packset_ancestral_state() (tskit.SiteTable method)
packset_derived_state() (tskit.MutationTable method)
packset_location() (tskit.IndividualTable method)
packset_metadata() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.SiteTable method)
packset_record() (tskit.ProvenanceTable method)
packset_timestamp() (tskit.ProvenanceTable method)
pairwise_diversity() (tskit.TreeSequence method)
parent() (tskit.Tree method)
parse_edges() (in module tskit)
parse_individuals() (in module tskit)
parse_mutations() (in module tskit)
parse_nodes() (in module tskit)
parse_populations() (in module tskit)
parse_sites() (in module tskit)
Population (class in tskit)
population() (tskit.Tree method)
(tskit.TreeSequence method)
populations() (tskit.TreeSequence method)
PopulationTable (class in tskit)
prev() (tskit.Tree method)
Provenance (class in tskit)
provenances() (tskit.TreeSequence method)
ProvenanceTable (class in tskit)
ProvenanceValidationError (in module tskit)
R
r2() (tskit.LdCalculator method)
r2_array() (tskit.LdCalculator method)
r2_matrix() (tskit.LdCalculator method)
rank() (tskit.Tree method)
register_metadata_codec() (in module tskit)
REVERSE (in module tskit)
right_child() (tskit.Tree method)
right_sib() (tskit.Tree method)
root() (tskit.Tree property)
root_threshold() (tskit.Tree property)
roots() (tskit.Tree property)
rtrim() (tskit.TableCollection method)
(tskit.TreeSequence method)
S
sample_count_stat() (tskit.TreeSequence method)
sample_size() (tskit.Tree property)
samples() (tskit.Tree method)
(tskit.TreeSequence method)
seek() (tskit.Tree method)
seek_index() (tskit.Tree method)
segregating_sites() (tskit.TreeSequence method)
sequence_length() (tskit.TreeSequence property)
set_columns() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.ProvenanceTable method)
(tskit.SiteTable method)
simplify() (tskit.TableCollection method)
(tskit.TreeSequence method)
Site (class in tskit)
site() (tskit.TreeSequence method)
sites() (tskit.Tree method)
(tskit.TreeSequence method)
SiteTable (class in tskit)
sort() (tskit.TableCollection method)
span() (tskit.Edge property)
(tskit.Tree property)
split_polytomies() (tskit.Tree method)
squash() (tskit.EdgeTable method)
subset() (tskit.TableCollection method)
(tskit.TreeSequence method)
T
table_metadata_schemas() (tskit.TreeSequence property)
TableCollection (class in tskit)
tables() (tskit.TreeSequence property)
tables_dict() (tskit.TreeSequence property)
Tajimas_D() (tskit.TreeSequence method)
time() (tskit.Tree method)
tmrca() (tskit.Tree method)
to_macs() (tskit.TreeSequence method)
to_nexus() (tskit.TreeSequence method)
TopologyCounter (class in tskit)
total_branch_length() (tskit.Tree property)
trait_correlation() (tskit.TreeSequence method)
trait_covariance() (tskit.TreeSequence method)
trait_linear_model() (tskit.TreeSequence method)
trait_regression() (tskit.TreeSequence method)
Tree (class in tskit)
tree_sequence() (tskit.TableCollection method)
(tskit.Tree property)
trees() (tskit.TreeSequence method)
TreeSequence (class in tskit)
trim() (tskit.TableCollection method)
(tskit.TreeSequence method)
truncate() (tskit.EdgeTable method)
(tskit.IndividualTable method)
(tskit.MigrationTable method)
(tskit.MutationTable method)
(tskit.NodeTable method)
(tskit.PopulationTable method)
(tskit.ProvenanceTable method)
(tskit.SiteTable method)
tsk_bookmark_t (C struct)
tsk_bookmark_t.edges (C var)
tsk_bookmark_t.individuals (C var)
tsk_bookmark_t.migrations (C var)
tsk_bookmark_t.mutations (C var)
tsk_bookmark_t.nodes (C var)
tsk_bookmark_t.populations (C var)
tsk_bookmark_t.provenances (C var)
tsk_bookmark_t.sites (C var)
TSK_DEBUG (C macro)
tsk_edge_t (C struct)
tsk_edge_t.child (C var)
tsk_edge_t.id (C var)
tsk_edge_t.left (C var)
tsk_edge_t.metadata (C var)
tsk_edge_t.metadata_length (C var)
tsk_edge_t.parent (C var)
tsk_edge_t.right (C var)
tsk_edge_table_add_row (C function)
tsk_edge_table_clear (C function)
tsk_edge_table_copy (C function)
tsk_edge_table_equals (C function)
tsk_edge_table_free (C function)
tsk_edge_table_get_row (C function)
tsk_edge_table_init (C function)
tsk_edge_table_print_state (C function)
tsk_edge_table_set_metadata_schema (C function)
tsk_edge_table_t (C struct)
tsk_edge_table_t.child (C var)
tsk_edge_table_t.left (C var)
tsk_edge_table_t.metadata (C var)
tsk_edge_table_t.metadata_length (C var)
tsk_edge_table_t.metadata_offset (C var)
tsk_edge_table_t.metadata_schema (C var)
tsk_edge_table_t.num_rows (C var)
tsk_edge_table_t.options (C var)
tsk_edge_table_t.parent (C var)
tsk_edge_table_t.right (C var)
tsk_edge_table_truncate (C function)
TSK_ERR_BAD_PARAM_VALUE (C macro)
TSK_ERR_BUFFER_OVERFLOW (C macro)
TSK_ERR_EOF (C macro)
TSK_ERR_FILE_FORMAT (C macro)
TSK_ERR_FILE_VERSION_TOO_NEW (C macro)
TSK_ERR_FILE_VERSION_TOO_OLD (C macro)
TSK_ERR_GENERATE_UUID (C macro)
TSK_ERR_GENERIC (C macro)
TSK_ERR_IO (C macro)
TSK_ERR_NO_MEMORY (C macro)
TSK_ERR_UNSUPPORTED_OPERATION (C macro)
tsk_flags_t (C type)
tsk_id_t (C type)
tsk_individual_t (C struct)
tsk_individual_t.flags (C var)
tsk_individual_t.id (C var)
tsk_individual_t.location (C var)
tsk_individual_t.location_length (C var)
tsk_individual_t.metadata (C var)
tsk_individual_t.metadata_length (C var)
tsk_individual_table_add_row (C function)
tsk_individual_table_clear (C function)
tsk_individual_table_copy (C function)
tsk_individual_table_equals (C function)
tsk_individual_table_free (C function)
tsk_individual_table_get_row (C function)
tsk_individual_table_init (C function)
tsk_individual_table_print_state (C function)
tsk_individual_table_set_metadata_schema (C function)
tsk_individual_table_t (C struct)
tsk_individual_table_t.flags (C var)
tsk_individual_table_t.location (C var)
tsk_individual_table_t.location_length (C var)
tsk_individual_table_t.location_offset (C var)
tsk_individual_table_t.metadata (C var)
tsk_individual_table_t.metadata_length (C var)
tsk_individual_table_t.metadata_offset (C var)
tsk_individual_table_t.metadata_schema (C var)
tsk_individual_table_t.num_rows (C var)
tsk_individual_table_truncate (C function)
tsk_migration_t (C struct)
tsk_migration_t.dest (C var)
tsk_migration_t.id (C var)
tsk_migration_t.left (C var)
tsk_migration_t.metadata (C var)
tsk_migration_t.metadata_length (C var)
tsk_migration_t.node (C var)
tsk_migration_t.right (C var)
tsk_migration_t.source (C var)
tsk_migration_t.time (C var)
tsk_migration_table_add_row (C function)
tsk_migration_table_clear (C function)
tsk_migration_table_copy (C function)
tsk_migration_table_equals (C function)
tsk_migration_table_free (C function)
tsk_migration_table_get_row (C function)
tsk_migration_table_init (C function)
tsk_migration_table_print_state (C function)
tsk_migration_table_set_metadata_schema (C function)
tsk_migration_table_t (C struct)
tsk_migration_table_t.dest (C var)
tsk_migration_table_t.left (C var)
tsk_migration_table_t.metadata (C var)
tsk_migration_table_t.metadata_length (C var)
tsk_migration_table_t.metadata_offset (C var)
tsk_migration_table_t.metadata_schema (C var)
tsk_migration_table_t.node (C var)
tsk_migration_table_t.num_rows (C var)
tsk_migration_table_t.right (C var)
tsk_migration_table_t.source (C var)
tsk_migration_table_t.time (C var)
tsk_migration_table_truncate (C function)
tsk_mutation_t (C struct)
tsk_mutation_t.derived_state (C var)
tsk_mutation_t.derived_state_length (C var)
tsk_mutation_t.id (C var)
tsk_mutation_t.metadata (C var)
tsk_mutation_t.metadata_length (C var)
tsk_mutation_t.node (C var)
tsk_mutation_t.parent (C var)
tsk_mutation_t.site (C var)
tsk_mutation_t.time (C var)
tsk_mutation_table_add_row (C function)
tsk_mutation_table_clear (C function)
tsk_mutation_table_copy (C function)
tsk_mutation_table_equals (C function)
tsk_mutation_table_free (C function)
tsk_mutation_table_get_row (C function)
tsk_mutation_table_init (C function)
tsk_mutation_table_print_state (C function)
tsk_mutation_table_set_metadata_schema (C function)
tsk_mutation_table_t (C struct)
tsk_mutation_table_t.derived_state (C var)
tsk_mutation_table_t.derived_state_offset (C var)
tsk_mutation_table_t.metadata (C var)
tsk_mutation_table_t.metadata_length (C var)
tsk_mutation_table_t.metadata_offset (C var)
tsk_mutation_table_t.metadata_schema (C var)
tsk_mutation_table_t.node (C var)
tsk_mutation_table_t.num_rows (C var)
tsk_mutation_table_t.parent (C var)
tsk_mutation_table_t.site (C var)
tsk_mutation_table_t.time (C var)
tsk_mutation_table_truncate (C function)
TSK_NO_CHECK_INTEGRITY (C macro)
TSK_NO_INIT (C macro)
tsk_node_t (C struct)
tsk_node_t.flags (C var)
tsk_node_t.id (C var)
tsk_node_t.individual (C var)
tsk_node_t.metadata (C var)
tsk_node_t.metadata_length (C var)
tsk_node_t.population (C var)
tsk_node_t.time (C var)
tsk_node_table_add_row (C function)
tsk_node_table_clear (C function)
tsk_node_table_copy (C function)
tsk_node_table_equals (C function)
tsk_node_table_free (C function)
tsk_node_table_get_row (C function)
tsk_node_table_init (C function)
tsk_node_table_print_state (C function)
tsk_node_table_set_metadata_schema (C function)
tsk_node_table_t (C struct)
tsk_node_table_t.flags (C var)
tsk_node_table_t.individual (C var)
tsk_node_table_t.metadata (C var)
tsk_node_table_t.metadata_length (C var)
tsk_node_table_t.metadata_offset (C var)
tsk_node_table_t.metadata_schema (C var)
tsk_node_table_t.num_rows (C var)
tsk_node_table_t.population (C var)
tsk_node_table_t.time (C var)
tsk_node_table_truncate (C function)
tsk_population_t (C struct)
tsk_population_t.id (C var)
tsk_population_t.metadata (C var)
tsk_population_t.metadata_length (C var)
tsk_population_table_add_row (C function)
tsk_population_table_clear (C function)
tsk_population_table_copy (C function)
tsk_population_table_equals (C function)
tsk_population_table_free (C function)
tsk_population_table_get_row (C function)
tsk_population_table_init (C function)
tsk_population_table_print_state (C function)
tsk_population_table_set_metadata_schema (C function)
tsk_population_table_t (C struct)
tsk_population_table_t.metadata (C var)
tsk_population_table_t.metadata_length (C var)
tsk_population_table_t.metadata_offset (C var)
tsk_population_table_t.metadata_schema (C var)
tsk_population_table_t.num_rows (C var)
tsk_population_table_truncate (C function)
tsk_provenance_t (C struct)
tsk_provenance_t.id (C var)
tsk_provenance_t.record (C var)
tsk_provenance_t.record_length (C var)
tsk_provenance_t.timestamp (C var)
tsk_provenance_t.timestamp_length (C var)
tsk_provenance_table_add_row (C function)
tsk_provenance_table_clear (C function)
tsk_provenance_table_copy (C function)
tsk_provenance_table_equals (C function)
tsk_provenance_table_free (C function)
tsk_provenance_table_get_row (C function)
tsk_provenance_table_init (C function)
tsk_provenance_table_print_state (C function)
tsk_provenance_table_t (C struct)
tsk_provenance_table_t.num_rows (C var)
tsk_provenance_table_t.record (C var)
tsk_provenance_table_t.record_length (C var)
tsk_provenance_table_t.record_offset (C var)
tsk_provenance_table_t.timestamp (C var)
tsk_provenance_table_t.timestamp_length (C var)
tsk_provenance_table_t.timestamp_offset (C var)
tsk_provenance_table_truncate (C function)
tsk_site_t (C struct)
tsk_site_t.ancestral_state (C var)
tsk_site_t.ancestral_state_length (C var)
tsk_site_t.id (C var)
tsk_site_t.metadata (C var)
tsk_site_t.metadata_length (C var)
tsk_site_t.position (C var)
tsk_site_table_add_row (C function)
tsk_site_table_clear (C function)
tsk_site_table_copy (C function)
tsk_site_table_equals (C function)
tsk_site_table_free (C function)
tsk_site_table_get_row (C function)
tsk_site_table_init (C function)
tsk_site_table_print_state (C function)
tsk_site_table_set_metadata_schema (C function)
tsk_site_table_t (C struct)
tsk_site_table_t.ancestral_state (C var)
tsk_site_table_t.ancestral_state_offset (C var)
tsk_site_table_t.metadata (C var)
tsk_site_table_t.metadata_length (C var)
tsk_site_table_t.metadata_offset (C var)
tsk_site_table_t.metadata_schema (C var)
tsk_site_table_t.num_rows (C var)
tsk_site_table_t.position (C var)
tsk_site_table_truncate (C function)
tsk_size_t (C type)
tsk_strerror (C function)
tsk_table_collection_build_index (C function)
tsk_table_collection_check_integrity (C function)
tsk_table_collection_clear (C function)
tsk_table_collection_copy (C function)
tsk_table_collection_drop_index (C function)
tsk_table_collection_dump (C function)
tsk_table_collection_dumpf (C function)
tsk_table_collection_equals (C function)
tsk_table_collection_free (C function)
tsk_table_collection_has_index (C function)
tsk_table_collection_init (C function)
tsk_table_collection_load (C function)
tsk_table_collection_loadf (C function)
tsk_table_collection_print_state (C function)
tsk_table_collection_record_num_rows (C function)
tsk_table_collection_set_indexes (C function)
tsk_table_collection_set_metadata (C function)
tsk_table_collection_set_metadata_schema (C function)
tsk_table_collection_simplify (C function)
tsk_table_collection_sort (C function)
tsk_table_collection_subset (C function)
tsk_table_collection_t (C struct)
tsk_table_collection_t.edges (C var)
tsk_table_collection_t.individuals (C var)
tsk_table_collection_t.metadata (C var)
tsk_table_collection_t.metadata_schema (C var)
tsk_table_collection_t.migrations (C var)
tsk_table_collection_t.mutations (C var)
tsk_table_collection_t.nodes (C var)
tsk_table_collection_t.populations (C var)
tsk_table_collection_t.provenances (C var)
tsk_table_collection_t.sequence_length (C var)
tsk_table_collection_t.sites (C var)
tsk_table_collection_truncate (C function)
tsk_table_collection_union (C function)
tsk_table_sorter_free (C function)
tsk_table_sorter_init (C function)
tsk_table_sorter_run (C function)
tsk_tree_clear (C function)
tsk_tree_first (C function)
tsk_tree_free (C function)
tsk_tree_get_index (C function)
tsk_tree_get_num_roots (C function)
tsk_tree_init (C function)
tsk_tree_last (C function)
tsk_tree_next (C function)
tsk_tree_prev (C function)
tsk_tree_print_state (C function)
tsk_tree_t (C struct)
tsk_tree_t.left_child (C var)
tsk_tree_t.left_root (C var)
tsk_tree_t.left_sib (C var)
tsk_tree_t.parent (C var)
tsk_tree_t.right_child (C var)
tsk_tree_t.right_sib (C var)
tsk_tree_t.tree_sequence (C var)
tsk_treeseq_copy_tables (C function)
tsk_treeseq_dump (C function)
tsk_treeseq_dumpf (C function)
tsk_treeseq_free (C function)
tsk_treeseq_init (C function)
tsk_treeseq_load (C function)
tsk_treeseq_loadf (C function)
tsk_treeseq_print_state (C function)
tsk_treeseq_t (C struct)
TSK_VERSION_MAJOR (C macro)
TSK_VERSION_MINOR (C macro)
TSK_VERSION_PATCH (C macro)
U
union() (tskit.TableCollection method)
(tskit.TreeSequence method)
unpack_bytes() (in module tskit)
unpack_strings() (in module tskit)
unrank() (tskit.Tree static method)
V
validate_and_encode_row() (tskit.MetadataSchema method)
validate_provenance() (in module tskit)
Variant (class in tskit)
variants() (tskit.TreeSequence method)
W
write_vcf() (tskit.TreeSequence method)
Y
Y1() (tskit.TreeSequence method)
Y2() (tskit.TreeSequence method)
Y3() (tskit.TreeSequence method)