Index _ | A | B | C | D | E | F | G | H | I | K | L | M | N | P | R | S | T | U | V | W | Y _ __getitem__() (tskit.EdgeTable method) (tskit.IndividualTable method) (tskit.MigrationTable method) (tskit.MutationTable method) (tskit.NodeTable method) (tskit.PopulationTable method) (tskit.SiteTable method) __str__() (tskit.Tree method) (tskit.TreeSequence method) _repr_html_() (tskit.Tree method) (tskit.TreeSequence method) _repr_svg_() (tskit.SVGString 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.sort_individuals (C var) _tsk_table_sorter_t.sort_mutations (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) alignments() (tskit.TreeSequence 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 (tskit.Site property) (tskit.Variant property) ALLELES_01 (in module tskit) ALLELES_ACGT (in module tskit) ancestors() (tskit.Tree method) ancestral_state (tskit.Site attribute) (tskit.SiteTableRow attribute) append() (tskit.EdgeTable method) (tskit.IndividualTable method) (tskit.MigrationTable method) (tskit.MutationTable method) (tskit.NodeTable method) (tskit.PopulationTable method) (tskit.ProvenanceTable method) (tskit.SiteTable method) 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) as_fasta() (tskit.TreeSequence method) as_newick() (tskit.Tree method) as_nexus() (tskit.TreeSequence method) as_vcf() (tskit.TreeSequence method) asdict() (tskit.EdgeTable method) (tskit.EdgeTableRow method) (tskit.IndividualTable method) (tskit.IndividualTableRow method) (tskit.MetadataSchema method) (tskit.MigrationTable method) (tskit.MigrationTableRow method) (tskit.MutationTable method) (tskit.MutationTableRow method) (tskit.NodeTable method) (tskit.NodeTableRow method) (tskit.PopulationTable method) (tskit.PopulationTableRow method) (tskit.ProvenanceTable method) (tskit.ProvenanceTableRow method) (tskit.SiteTable method) (tskit.SiteTableRow method) (tskit.TableCollection method) (tskit.TableCollectionIndexes method) aslist() (tskit.TreeSequence method) assert_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) at() (tskit.TreeSequence method) at_index() (tskit.TreeSequence method) B b1_index() (tskit.Tree method) b2_index() (tskit.Tree method) branch_length() (tskit.Tree method) breakpoints() (tskit.TreeSequence method) build_index() (tskit.TableCollection method) C canonicalise() (tskit.TableCollection method) child (tskit.Edge attribute) (tskit.EdgeTableRow attribute) 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) colless_index() (tskit.Tree 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) (tskit.Variant method) count_topologies() (tskit.Tree method) (tskit.TreeSequence method) counts() (tskit.Variant method) D data (tskit.ReferenceSequence property) decapitate() (tskit.TreeSequence method) decode() (tskit.Variant method) decode_row() (tskit.MetadataSchema method) deduplicate_sites() (tskit.TableCollection method) delete_intervals() (tskit.TableCollection method) (tskit.TreeSequence method) delete_older() (tskit.TableCollection method) delete_sites() (tskit.TableCollection method) (tskit.TreeSequence method) depth() (tskit.Tree method) derived_state (tskit.Mutation attribute) (tskit.MutationTableRow attribute) dest (tskit.Migration attribute) (tskit.MigrationTableRow attribute) discrete_genome (tskit.TreeSequence property) discrete_time (tskit.TreeSequence property) distance_between() (tskit.Tree method) divergence() (tskit.TreeSequence method) diversity() (tskit.TreeSequence method) draw() (tskit.Tree method) draw_svg() (tskit.Tree method) (tskit.TreeSequence method) draw_text() (tskit.Tree method) (tskit.TreeSequence method) drop_index() (tskit.TableCollection method) drop_metadata() (tskit.EdgeTable method) (tskit.IndividualTable method) (tskit.MigrationTable method) (tskit.MutationTable method) (tskit.NodeTable method) (tskit.PopulationTable method) (tskit.SiteTable method) dump() (tskit.TableCollection method) (tskit.TreeSequence method) dump_tables() (tskit.TreeSequence method) dump_text() (tskit.TreeSequence method) DuplicatePositionsError E Edge (class in tskit) edge (tskit.Mutation attribute) (tskit.TableMetadataSchemas attribute) edge() (tskit.Tree method) (tskit.TreeSequence method) edge_array (tskit.Tree property) edge_diffs() (tskit.TreeSequence method) edges (tskit.TableCollection property) edges() (tskit.TreeSequence method) edges_child (tskit.TreeSequence property) edges_left (tskit.TreeSequence property) edges_parent (tskit.TreeSequence property) edges_right (tskit.TreeSequence property) EdgeTable (class in tskit) EdgeTableRow (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) extend_haplotypes() (tskit.TreeSequence method) F f2() (tskit.TreeSequence method) f3() (tskit.TreeSequence method) f4() (tskit.TreeSequence method) file_uuid (tskit.TableCollection property) first() (tskit.Tree method) (tskit.TreeSequence method) flags (tskit.Individual attribute) (tskit.IndividualTableRow attribute) (tskit.Node attribute) (tskit.NodeTableRow attribute) FORWARD (in module tskit) frequencies() (tskit.Variant method) 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_binary() (tskit.Tree static method) generate_star() (tskit.Tree static method) genetic_relatedness() (tskit.TreeSequence method) genetic_relatedness_matrix() (tskit.TreeSequence method) genetic_relatedness_vector() (tskit.TreeSequence method) genetic_relatedness_weighted() (tskit.TreeSequence method) genotype_matrix() (tskit.TreeSequence method) genotypes (tskit.Variant property) H haplotypes() (tskit.TreeSequence method) has_index() (tskit.TableCollection method) has_missing_data (tskit.Variant property) has_multiple_roots (tskit.Tree property) has_reference_sequence() (tskit.TableCollection method) (tskit.TreeSequence method) has_single_root (tskit.Tree property) I ibd_segments() (tskit.TableCollection method) (tskit.TreeSequence method) id (tskit.Edge attribute) (tskit.Individual attribute) (tskit.Migration attribute) (tskit.Mutation attribute) (tskit.Node attribute) (tskit.Population attribute) (tskit.Site attribute) IdentitySegment (class in tskit) IdentitySegmentList (class in tskit) IdentitySegments (class in tskit) impute_unknown_mutations_time() (tskit.TreeSequence method) index (tskit.Tree property) indexes (tskit.TableCollection property) indexes_edge_insertion_order (tskit.TreeSequence property) indexes_edge_removal_order (tskit.TreeSequence property) Individual (class in tskit) individual (tskit.Node attribute) (tskit.NodeTableRow attribute) (tskit.TableMetadataSchemas attribute) individual() (tskit.TreeSequence method) individuals (tskit.TableCollection property) individuals() (tskit.TreeSequence method) individuals_flags (tskit.TreeSequence property) individuals_location (tskit.TreeSequence property) individuals_population (tskit.TreeSequence property) individuals_time (tskit.TreeSequence property) IndividualTable (class in tskit) IndividualTableRow (class in tskit) Interval (class in tskit) interval (tskit.Edge property) (tskit.Tree property) is_descendant() (tskit.Tree method) is_internal() (tskit.Tree method) is_isolated() (tskit.Tree method) is_leaf() (tskit.Tree method) is_null() (tskit.ReferenceSequence method) is_root() (tskit.Tree method) is_sample() (tskit.Node method) (tskit.Tree method) is_unknown_time() (in module tskit) isolated_as_missing (tskit.Variant property) K kc_distance() (tskit.Tree method) (tskit.TreeSequence method) keep_intervals() (tskit.TableCollection method) (tskit.TreeSequence method) keep_rows() (tskit.EdgeTable method) (tskit.IndividualTable method) (tskit.MigrationTable method) (tskit.MutationTable method) (tskit.NodeTable method) (tskit.PopulationTable method) (tskit.ProvenanceTable method) (tskit.SiteTable method) L label (tskit.Rank attribute) last() (tskit.Tree method) (tskit.TreeSequence method) LdCalculator (class in tskit) leaves() (tskit.Tree method) left (tskit.Edge attribute) (tskit.EdgeTableRow attribute) (tskit.IdentitySegment attribute) (tskit.IdentitySegmentList property) (tskit.Interval attribute) (tskit.Migration attribute) (tskit.MigrationTableRow attribute) left_child() (tskit.Tree method) left_child_array (tskit.Tree property) left_root (tskit.Tree property) left_sib() (tskit.Tree method) left_sib_array (tskit.Tree property) link_ancestors() (tskit.TableCollection method) load() (in module tskit) load_text() (in module tskit) location (tskit.Individual attribute) (tskit.IndividualTableRow attribute) ltrim() (tskit.TableCollection method) (tskit.TreeSequence method) M map_mutations() (tskit.Tree method) max_root_time (tskit.TreeSequence property) max_time (tskit.TreeSequence property) mean_descendants() (tskit.TreeSequence method) metadata (tskit.Edge attribute) (tskit.EdgeTableRow attribute) (tskit.Individual attribute) (tskit.IndividualTableRow attribute) (tskit.Migration attribute) (tskit.MigrationTableRow attribute) (tskit.Mutation attribute) (tskit.MutationTableRow attribute) (tskit.Node attribute) (tskit.NodeTableRow attribute) (tskit.Population attribute) (tskit.PopulationTableRow attribute) (tskit.ReferenceSequence property) (tskit.Site attribute) (tskit.SiteTableRow attribute) (tskit.TableCollection property) (tskit.TreeSequence property) metadata_bytes (tskit.ReferenceSequence property) (tskit.TableCollection property) metadata_schema (tskit.EdgeTable property) (tskit.IndividualTable property) (tskit.MigrationTable property) (tskit.MutationTable property) (tskit.NodeTable property) (tskit.PopulationTable property) (tskit.ReferenceSequence property) (tskit.SiteTable property) (tskit.TableCollection property) (tskit.TreeSequence property) metadata_vector() (tskit.EdgeTable method) (tskit.IndividualTable method) (tskit.MigrationTable method) (tskit.MutationTable method) (tskit.NodeTable method) (tskit.PopulationTable method) (tskit.SiteTable method) MetadataEncodingError MetadataSchema (class in tskit) MetadataSchemaValidationError MetadataValidationError mid (tskit.Interval property) (tskit.Tree property) Migration (class in tskit) migration (tskit.TableMetadataSchemas attribute) migration() (tskit.TreeSequence method) migrations (tskit.TableCollection property) migrations() (tskit.TreeSequence method) migrations_dest (tskit.TreeSequence property) migrations_left (tskit.TreeSequence property) migrations_node (tskit.TreeSequence property) migrations_right (tskit.TreeSequence property) migrations_source (tskit.TreeSequence property) migrations_time (tskit.TreeSequence property) MigrationTable (class in tskit) MigrationTableRow (class in tskit) min_time (tskit.TreeSequence property) MISSING_DATA (in module tskit) module tskit mrca() (tskit.Tree method) Mutation (class in tskit) mutation (tskit.TableMetadataSchemas attribute) mutation() (tskit.TreeSequence method) mutations (tskit.Site attribute) (tskit.TableCollection property) mutations() (tskit.Tree method) (tskit.TreeSequence method) mutations_node (tskit.TreeSequence property) mutations_parent (tskit.TreeSequence property) mutations_site (tskit.TreeSequence property) mutations_time (tskit.TreeSequence property) MutationTable (class in tskit) MutationTableRow (class in tskit) N 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.TableCollectionIndexes property) (tskit.TreeSequence property) newick() (tskit.Tree method) next() (tskit.Tree method) Node (class in tskit) node (tskit.IdentitySegment attribute) (tskit.IdentitySegmentList property) (tskit.Migration attribute) (tskit.MigrationTableRow attribute) (tskit.Mutation attribute) (tskit.MutationTableRow attribute) (tskit.TableMetadataSchemas attribute) node() (tskit.TreeSequence method) NODE_IS_SAMPLE (in module tskit) nodes (tskit.Individual attribute) (tskit.TableCollection property) nodes() (tskit.Tree method) (tskit.TreeSequence method) nodes_flags (tskit.TreeSequence property) nodes_individual (tskit.TreeSequence property) nodes_population (tskit.TreeSequence property) nodes_time (tskit.TreeSequence property) NodeTable (class in tskit) NodeTableRow (class in tskit) NULL (in module tskit) null() (tskit.MetadataSchema static method) num_alleles (tskit.Variant property) num_children() (tskit.Tree method) num_children_array (tskit.Tree property) num_edges (tskit.Tree property) (tskit.TreeSequence property) num_individuals (tskit.TreeSequence property) num_lineages() (tskit.Tree method) num_migrations (tskit.TreeSequence property) num_missing (tskit.Variant property) num_mutations (tskit.Tree property) (tskit.TreeSequence property) num_nodes (tskit.Tree property) (tskit.TreeSequence property) num_pairs (tskit.IdentitySegments property) num_populations (tskit.TreeSequence property) num_provenances (tskit.TreeSequence property) num_roots (tskit.Tree property) num_samples (tskit.TreeSequence property) num_samples() (tskit.Tree method) num_segments (tskit.IdentitySegments 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_parents() (tskit.IndividualTable method) packset_record() (tskit.ProvenanceTable method) packset_timestamp() (tskit.ProvenanceTable method) pair_coalescence_counts() (tskit.TreeSequence method) pair_coalescence_quantiles() (tskit.TreeSequence method) pair_coalescence_rates() (tskit.TreeSequence method) pairs (tskit.IdentitySegments property) pairwise_diversity() (tskit.TreeSequence method) parent (tskit.Edge attribute) (tskit.EdgeTableRow attribute) (tskit.Mutation attribute) (tskit.MutationTableRow attribute) parent() (tskit.Tree method) parent_array (tskit.Tree property) parents (tskit.Individual attribute) (tskit.IndividualTableRow attribute) parse_edges() (in module tskit) parse_individuals() (in module tskit) parse_migrations() (in module tskit) parse_mutations() (in module tskit) parse_nodes() (in module tskit) parse_populations() (in module tskit) parse_sites() (in module tskit) path_length() (tskit.Tree method) permissive_json() (tskit.MetadataSchema static method) Population (class in tskit) population (tskit.Node attribute) (tskit.NodeTableRow attribute) (tskit.TableMetadataSchemas attribute) population() (tskit.Tree method) (tskit.TreeSequence method) populations (tskit.TableCollection property) populations() (tskit.TreeSequence method) PopulationTable (class in tskit) PopulationTableRow (class in tskit) position (tskit.Site attribute) (tskit.SiteTableRow attribute) postorder() (tskit.Tree method) preorder() (tskit.Tree method) prev() (tskit.Tree method) Provenance (class in tskit) provenance() (tskit.TreeSequence method) provenances (tskit.TableCollection property) provenances() (tskit.TreeSequence method) ProvenanceTable (class in tskit) ProvenanceTableRow (class in tskit) ProvenanceValidationError R r2() (tskit.LdCalculator method) r2_array() (tskit.LdCalculator method) r2_matrix() (tskit.LdCalculator method) random_nucleotides() (in module tskit) Rank (class in tskit) rank() (tskit.Tree method) record (tskit.Provenance attribute) (tskit.ProvenanceTableRow attribute) reference_sequence (tskit.TableCollection property) (tskit.TreeSequence property) ReferenceSequence (class in tskit) register_metadata_codec() (in module tskit) replace() (tskit.EdgeTableRow method) (tskit.IndividualTableRow method) (tskit.MigrationTableRow method) (tskit.MutationTableRow method) (tskit.NodeTableRow method) (tskit.PopulationTableRow method) (tskit.ProvenanceTableRow method) (tskit.SiteTableRow method) REVERSE (in module tskit) rf_distance() (tskit.Tree method) right (tskit.Edge attribute) (tskit.EdgeTableRow attribute) (tskit.IdentitySegment attribute) (tskit.IdentitySegmentList property) (tskit.Interval attribute) (tskit.Migration attribute) (tskit.MigrationTableRow attribute) right_child() (tskit.Tree method) right_child_array (tskit.Tree property) right_sib() (tskit.Tree method) right_sib_array (tskit.Tree property) root (tskit.Tree property) root_threshold (tskit.Tree property) roots (tskit.Tree property) rtrim() (tskit.TableCollection method) (tskit.TreeSequence method) S sackin_index() (tskit.Tree method) sample_count_stat() (tskit.TreeSequence method) samples (tskit.Variant 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.TableCollection property) (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) shape (tskit.Rank attribute) siblings() (tskit.Tree method) simplify() (tskit.TableCollection method) (tskit.TreeSequence method) Site (class in tskit) site (tskit.Mutation attribute) (tskit.MutationTableRow attribute) (tskit.TableMetadataSchemas attribute) (tskit.Variant property) site() (tskit.TreeSequence method) sites (tskit.TableCollection property) sites() (tskit.Tree method) (tskit.TreeSequence method) sites_position (tskit.TreeSequence property) SiteTable (class in tskit) SiteTableRow (class in tskit) sort() (tskit.TableCollection method) sort_individuals() (tskit.TableCollection method) source (tskit.Migration attribute) (tskit.MigrationTableRow attribute) span (tskit.Edge property) (tskit.IdentitySegment property) (tskit.Interval property) (tskit.Tree property) split_edges() (tskit.TreeSequence method) split_polytomies() (tskit.Tree method) squash() (tskit.EdgeTable method) states() (tskit.Variant method) subset() (tskit.TableCollection method) (tskit.TreeSequence method) SVGString (class in tskit) T table_metadata_schemas (tskit.TreeSequence property) table_name_map (tskit.TableCollection property) TableCollection (class in tskit) TableCollectionIndexes (class in tskit) TableMetadataSchemas (class in tskit) tables (tskit.TreeSequence property) tables_dict (tskit.TreeSequence property) Tajimas_D() (tskit.TreeSequence method) time (tskit.Migration attribute) (tskit.MigrationTableRow attribute) (tskit.Mutation attribute) (tskit.MutationTableRow attribute) (tskit.Node attribute) (tskit.NodeTableRow attribute) time() (tskit.Tree method) time_units (tskit.TableCollection property) (tskit.TreeSequence property) TIME_UNITS_UNCALIBRATED (in module tskit) TIME_UNITS_UNKNOWN (in module tskit) timeasc() (tskit.Tree method) timedesc() (tskit.Tree method) timestamp (tskit.Provenance attribute) (tskit.ProvenanceTableRow attribute) tmrca() (tskit.Tree method) to_macs() (tskit.TreeSequence method) TopologyCounter (class in tskit) total_branch_length (tskit.Tree property) total_span (tskit.IdentitySegmentList property) (tskit.IdentitySegments 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.Tree property) tree_sequence() (tskit.TableCollection method) 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_bool_t (C type) TSK_CHECK_EDGE_ORDERING (C macro) TSK_CHECK_INDEXES (C macro) TSK_CHECK_INDIVIDUAL_ORDERING (C macro) TSK_CHECK_MIGRATION_ORDERING (C macro) TSK_CHECK_MUTATION_ORDERING (C macro) TSK_CHECK_SITE_DUPLICATES (C macro) TSK_CHECK_SITE_ORDERING (C macro) TSK_CHECK_TREES (C macro) TSK_CLEAR_METADATA_SCHEMAS (C macro) TSK_CLEAR_PROVENANCE (C macro) TSK_CLEAR_TS_METADATA_AND_SCHEMA (C macro) TSK_CMP_IGNORE_METADATA (C macro) TSK_CMP_IGNORE_PROVENANCE (C macro) TSK_CMP_IGNORE_REFERENCE_SEQUENCE (C macro) TSK_CMP_IGNORE_TABLES (C macro) TSK_CMP_IGNORE_TIMESTAMPS (C macro) TSK_CMP_IGNORE_TS_METADATA (C macro) TSK_COPY_FILE_UUID (C macro) 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_append_columns (C function) tsk_edge_table_clear (C function) tsk_edge_table_copy (C function) tsk_edge_table_equals (C function) tsk_edge_table_extend (C function) tsk_edge_table_free (C function) tsk_edge_table_get_row (C function) tsk_edge_table_init (C function) tsk_edge_table_keep_rows (C function) tsk_edge_table_print_state (C function) tsk_edge_table_set_columns (C function) tsk_edge_table_set_max_metadata_length_increment (C function) tsk_edge_table_set_max_rows_increment (C function) tsk_edge_table_set_metadata_schema (C function) tsk_edge_table_squash (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_edge_table_update_row (C function) TSK_ERR_ALLELE_NOT_FOUND (C macro) TSK_ERR_BAD_COLUMN_TYPE (C macro) TSK_ERR_BAD_EDGE_INTERVAL (C macro) TSK_ERR_BAD_EDGES_CONTRADICTORY_CHILDREN (C macro) TSK_ERR_BAD_NODE_TIME_ORDERING (C macro) TSK_ERR_BAD_OFFSET (C macro) TSK_ERR_BAD_PARAM_VALUE (C macro) TSK_ERR_BAD_SAMPLES (C macro) TSK_ERR_BAD_SEQUENCE_LENGTH (C macro) TSK_ERR_BAD_SITE_POSITION (C macro) TSK_ERR_BAD_TABLE_POSITION (C macro) TSK_ERR_BOTH_COLUMNS_REQUIRED (C macro) TSK_ERR_BUFFER_OVERFLOW (C macro) TSK_ERR_CANT_PROCESS_EDGES_WITH_METADATA (C macro) TSK_ERR_COLUMN_OVERFLOW (C macro) TSK_ERR_DISALLOWED_UNKNOWN_MUTATION_TIME (C macro) TSK_ERR_DUPLICATE_EDGES (C macro) TSK_ERR_DUPLICATE_SAMPLE (C macro) TSK_ERR_DUPLICATE_SITE_POSITION (C macro) TSK_ERR_EDGE_OUT_OF_BOUNDS (C macro) TSK_ERR_EDGES_NONCONTIGUOUS_PARENTS (C macro) TSK_ERR_EDGES_NOT_SORTED_CHILD (C macro) TSK_ERR_EDGES_NOT_SORTED_LEFT (C macro) TSK_ERR_EDGES_NOT_SORTED_PARENT_TIME (C macro) TSK_ERR_EOF (C macro) TSK_ERR_EXTEND_EDGES_BAD_MAXITER (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_GENOME_COORDS_NONFINITE (C macro) TSK_ERR_INDIVIDUAL_OUT_OF_BOUNDS (C macro) TSK_ERR_INDIVIDUAL_PARENT_CYCLE (C macro) TSK_ERR_INDIVIDUAL_POPULATION_MISMATCH (C macro) TSK_ERR_INDIVIDUAL_SELF_PARENT (C macro) TSK_ERR_INDIVIDUAL_TIME_MISMATCH (C macro) TSK_ERR_IO (C macro) TSK_ERR_KEEP_ROWS_MAP_TO_DELETED (C macro) TSK_ERR_KEEP_UNARY_MUTUALLY_EXCLUSIVE (C macro) TSK_ERR_LEFT_LESS_ZERO (C macro) TSK_ERR_METADATA_DISABLED (C macro) TSK_ERR_MIGRATION_OUT_OF_BOUNDS (C macro) TSK_ERR_MUST_IMPUTE_NON_SAMPLES (C macro) TSK_ERR_MUTATION_OUT_OF_BOUNDS (C macro) TSK_ERR_MUTATION_PARENT_AFTER_CHILD (C macro) TSK_ERR_MUTATION_PARENT_DIFFERENT_SITE (C macro) TSK_ERR_MUTATION_PARENT_EQUAL (C macro) TSK_ERR_MUTATION_PARENT_INCONSISTENT (C macro) TSK_ERR_MUTATION_TIME_HAS_BOTH_KNOWN_AND_UNKNOWN (C macro) TSK_ERR_MUTATION_TIME_OLDER_THAN_PARENT_MUTATION (C macro) TSK_ERR_MUTATION_TIME_OLDER_THAN_PARENT_NODE (C macro) TSK_ERR_MUTATION_TIME_YOUNGER_THAN_NODE (C macro) TSK_ERR_NO_MEMORY (C macro) TSK_ERR_NODE_OUT_OF_BOUNDS (C macro) TSK_ERR_NULL_CHILD (C macro) TSK_ERR_NULL_PARENT (C macro) TSK_ERR_POPULATION_OUT_OF_BOUNDS (C macro) TSK_ERR_POSITION_OUT_OF_BOUNDS (C macro) TSK_ERR_PROVENANCE_OUT_OF_BOUNDS (C macro) TSK_ERR_REQUIRED_COL_NOT_FOUND (C macro) TSK_ERR_RIGHT_GREATER_SEQ_LENGTH (C macro) TSK_ERR_SEEK_OUT_OF_BOUNDS (C macro) TSK_ERR_SITE_OUT_OF_BOUNDS (C macro) TSK_ERR_TABLE_OVERFLOW (C macro) TSK_ERR_TABLES_BAD_INDEXES (C macro) TSK_ERR_TABLES_NOT_INDEXED (C macro) TSK_ERR_TIME_NONFINITE (C macro) TSK_ERR_TOO_MANY_ALLELES (C macro) TSK_ERR_TREE_OVERFLOW (C macro) TSK_ERR_UNION_BAD_MAP (C macro) TSK_ERR_UNION_DIFF_HISTORIES (C macro) TSK_ERR_UNSORTED_INDIVIDUALS (C macro) TSK_ERR_UNSORTED_MIGRATIONS (C macro) TSK_ERR_UNSORTED_MUTATIONS (C macro) TSK_ERR_UNSORTED_SITES (C macro) TSK_ERR_UNSUPPORTED_OPERATION (C macro) TSK_ERR_ZERO_ALLELES (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_t.nodes (C var) tsk_individual_t.nodes_length (C var) tsk_individual_t.parents (C var) tsk_individual_t.parents_length (C var) tsk_individual_table_add_row (C function) tsk_individual_table_append_columns (C function) tsk_individual_table_clear (C function) tsk_individual_table_copy (C function) tsk_individual_table_equals (C function) tsk_individual_table_extend (C function) tsk_individual_table_free (C function) tsk_individual_table_get_row (C function) tsk_individual_table_init (C function) tsk_individual_table_keep_rows (C function) tsk_individual_table_print_state (C function) tsk_individual_table_set_columns (C function) tsk_individual_table_set_max_location_length_increment (C function) tsk_individual_table_set_max_metadata_length_increment (C function) tsk_individual_table_set_max_parents_length_increment (C function) tsk_individual_table_set_max_rows_increment (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_t.parents (C var) tsk_individual_table_t.parents_length (C var) tsk_individual_table_t.parents_offset (C var) tsk_individual_table_truncate (C function) tsk_individual_table_update_row (C function) tsk_is_unknown_time (C function) TSK_LOAD_SKIP_REFERENCE_SEQUENCE (C macro) TSK_LOAD_SKIP_TABLES (C macro) 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_append_columns (C function) tsk_migration_table_clear (C function) tsk_migration_table_copy (C function) tsk_migration_table_equals (C function) tsk_migration_table_extend (C function) tsk_migration_table_free (C function) tsk_migration_table_get_row (C function) tsk_migration_table_init (C function) tsk_migration_table_keep_rows (C function) tsk_migration_table_print_state (C function) tsk_migration_table_set_columns (C function) tsk_migration_table_set_max_metadata_length_increment (C function) tsk_migration_table_set_max_rows_increment (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_migration_table_update_row (C function) TSK_MISSING_DATA (C macro) tsk_mutation_t (C struct) tsk_mutation_t.derived_state (C var) tsk_mutation_t.derived_state_length (C var) tsk_mutation_t.edge (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_append_columns (C function) tsk_mutation_table_clear (C function) tsk_mutation_table_copy (C function) tsk_mutation_table_equals (C function) tsk_mutation_table_extend (C function) tsk_mutation_table_free (C function) tsk_mutation_table_get_row (C function) tsk_mutation_table_init (C function) tsk_mutation_table_keep_rows (C function) tsk_mutation_table_print_state (C function) tsk_mutation_table_set_columns (C function) tsk_mutation_table_set_max_derived_state_length_increment (C function) tsk_mutation_table_set_max_metadata_length_increment (C function) tsk_mutation_table_set_max_rows_increment (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_mutation_table_update_row (C function) TSK_NO_CHECK_INTEGRITY (C macro) TSK_NO_CHECK_POPULATION_REFS (C macro) TSK_NO_INIT (C macro) TSK_NODE_IS_SAMPLE (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_append_columns (C function) tsk_node_table_clear (C function) tsk_node_table_copy (C function) tsk_node_table_equals (C function) tsk_node_table_extend (C function) tsk_node_table_free (C function) tsk_node_table_get_row (C function) tsk_node_table_init (C function) tsk_node_table_keep_rows (C function) tsk_node_table_print_state (C function) tsk_node_table_set_columns (C function) tsk_node_table_set_max_metadata_length_increment (C function) tsk_node_table_set_max_rows_increment (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_node_table_update_row (C function) TSK_NULL (C macro) 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_append_columns (C function) tsk_population_table_clear (C function) tsk_population_table_copy (C function) tsk_population_table_equals (C function) tsk_population_table_extend (C function) tsk_population_table_free (C function) tsk_population_table_get_row (C function) tsk_population_table_init (C function) tsk_population_table_keep_rows (C function) tsk_population_table_print_state (C function) tsk_population_table_set_columns (C function) tsk_population_table_set_max_metadata_length_increment (C function) tsk_population_table_set_max_rows_increment (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_population_table_update_row (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_append_columns (C function) tsk_provenance_table_clear (C function) tsk_provenance_table_copy (C function) tsk_provenance_table_equals (C function) tsk_provenance_table_extend (C function) tsk_provenance_table_free (C function) tsk_provenance_table_get_row (C function) tsk_provenance_table_init (C function) tsk_provenance_table_keep_rows (C function) tsk_provenance_table_print_state (C function) tsk_provenance_table_set_columns (C function) tsk_provenance_table_set_max_record_length_increment (C function) tsk_provenance_table_set_max_rows_increment (C function) tsk_provenance_table_set_max_timestamp_length_increment (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_provenance_table_update_row (C function) TSK_SIMPLIFY_FILTER_INDIVIDUALS (C macro) TSK_SIMPLIFY_FILTER_POPULATIONS (C macro) TSK_SIMPLIFY_FILTER_SITES (C macro) TSK_SIMPLIFY_KEEP_INPUT_ROOTS (C macro) TSK_SIMPLIFY_KEEP_UNARY (C macro) TSK_SIMPLIFY_KEEP_UNARY_IN_INDIVIDUALS (C macro) TSK_SIMPLIFY_NO_FILTER_NODES (C macro) TSK_SIMPLIFY_NO_UPDATE_SAMPLE_FLAGS (C macro) TSK_SIMPLIFY_REDUCE_TO_SITE_TOPOLOGY (C macro) 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.mutations (C var) tsk_site_t.mutations_length (C var) tsk_site_t.position (C var) tsk_site_table_add_row (C function) tsk_site_table_append_columns (C function) tsk_site_table_clear (C function) tsk_site_table_copy (C function) tsk_site_table_equals (C function) tsk_site_table_extend (C function) tsk_site_table_free (C function) tsk_site_table_get_row (C function) tsk_site_table_init (C function) tsk_site_table_keep_rows (C function) tsk_site_table_print_state (C function) tsk_site_table_set_columns (C function) tsk_site_table_set_max_ancestral_state_length_increment (C function) tsk_site_table_set_max_metadata_length_increment (C function) tsk_site_table_set_max_rows_increment (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_site_table_update_row (C function) tsk_size_t (C type) tsk_strerror (C function) TSK_SUBSET_KEEP_UNREFERENCED (C macro) TSK_SUBSET_NO_CHANGE_POPULATIONS (C macro) tsk_table_collection_build_index (C function) tsk_table_collection_canonicalise (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_individual_topological_sort (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_metadata (C function) tsk_table_collection_set_metadata_schema (C function) tsk_table_collection_set_time_units (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_t.time_units (C var) tsk_table_collection_truncate (C function) tsk_table_collection_union (C function) TSK_TABLE_NO_METADATA (C macro) tsk_table_sorter_free (C function) tsk_table_sorter_init (C function) tsk_table_sorter_run (C function) TSK_TAKE_OWNERSHIP (C macro) TSK_TC_NO_EDGE_METADATA (C macro) tsk_tree_clear (C function) tsk_tree_copy (C function) tsk_tree_first (C function) tsk_tree_free (C function) tsk_tree_get_branch_length (C function) tsk_tree_get_depth (C function) tsk_tree_get_left_root (C function) tsk_tree_get_mrca (C function) tsk_tree_get_num_roots (C function) tsk_tree_get_num_samples (C function) tsk_tree_get_parent (C function) tsk_tree_get_right_root (C function) tsk_tree_get_sites (C function) tsk_tree_get_size_bound (C function) tsk_tree_get_time (C function) tsk_tree_get_total_branch_length (C function) tsk_tree_init (C function) tsk_tree_is_descendant (C function) tsk_tree_last (C function) tsk_tree_next (C function) TSK_TREE_OK (C macro) tsk_tree_postorder (C function) tsk_tree_postorder_from (C function) tsk_tree_preorder (C function) tsk_tree_preorder_from (C function) tsk_tree_prev (C function) tsk_tree_print_state (C function) tsk_tree_seek (C function) tsk_tree_seek_index (C function) tsk_tree_t (C struct) tsk_tree_t.edge (C var) tsk_tree_t.index (C var) tsk_tree_t.interval (C var) tsk_tree_t.left_child (C var) tsk_tree_t.left_sib (C var) tsk_tree_t.num_children (C var) tsk_tree_t.num_edges (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_tree_t.virtual_root (C var) tsk_treeseq_copy_tables (C function) tsk_treeseq_dump (C function) tsk_treeseq_dumpf (C function) tsk_treeseq_extend_haplotypes (C function) tsk_treeseq_free (C function) tsk_treeseq_get_breakpoints (C function) tsk_treeseq_get_discrete_genome (C function) tsk_treeseq_get_discrete_time (C function) tsk_treeseq_get_edge (C function) tsk_treeseq_get_file_uuid (C function) tsk_treeseq_get_individual (C function) tsk_treeseq_get_max_time (C function) tsk_treeseq_get_metadata (C function) tsk_treeseq_get_metadata_length (C function) tsk_treeseq_get_metadata_schema (C function) tsk_treeseq_get_metadata_schema_length (C function) tsk_treeseq_get_migration (C function) tsk_treeseq_get_min_time (C function) tsk_treeseq_get_mutation (C function) tsk_treeseq_get_node (C function) tsk_treeseq_get_num_edges (C function) tsk_treeseq_get_num_individuals (C function) tsk_treeseq_get_num_migrations (C function) tsk_treeseq_get_num_mutations (C function) tsk_treeseq_get_num_nodes (C function) tsk_treeseq_get_num_populations (C function) tsk_treeseq_get_num_provenances (C function) tsk_treeseq_get_num_samples (C function) tsk_treeseq_get_num_sites (C function) tsk_treeseq_get_num_trees (C function) tsk_treeseq_get_population (C function) tsk_treeseq_get_provenance (C function) tsk_treeseq_get_sample_index_map (C function) tsk_treeseq_get_samples (C function) tsk_treeseq_get_sequence_length (C function) tsk_treeseq_get_site (C function) tsk_treeseq_get_time_units (C function) tsk_treeseq_get_time_units_length (C function) tsk_treeseq_init (C function) tsk_treeseq_is_sample (C function) tsk_treeseq_load (C function) tsk_treeseq_loadf (C function) tsk_treeseq_print_state (C function) tsk_treeseq_simplify (C function) tsk_treeseq_t (C struct) tsk_treeseq_t.tables (C var) TSK_TS_INIT_BUILD_INDEXES (C macro) TSK_UNION_NO_ADD_POP (C macro) TSK_UNION_NO_CHECK_SHARED (C macro) TSK_UNKNOWN_TIME (C macro) tsk_variant_decode (C function) tsk_variant_free (C function) tsk_variant_init (C function) tsk_variant_print_state (C function) tsk_variant_restricted_copy (C function) tsk_variant_t (C struct) tsk_variant_t.allele_lengths (C var) tsk_variant_t.alleles (C var) tsk_variant_t.genotypes (C var) tsk_variant_t.has_missing_data (C var) tsk_variant_t.num_alleles (C var) tsk_variant_t.num_samples (C var) tsk_variant_t.samples (C var) tsk_variant_t.site (C var) tsk_variant_t.tree_sequence (C var) TSK_VERSION_MAJOR (C macro) TSK_VERSION_MINOR (C macro) TSK_VERSION_PATCH (C macro) tskit module U union() (tskit.TableCollection method) (tskit.TreeSequence method) UNKNOWN_TIME (in module tskit) 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) virtual_root (tskit.Tree property) W write_fasta() (tskit.TreeSequence method) write_nexus() (tskit.TreeSequence method) write_vcf() (tskit.TreeSequence method) Y Y1() (tskit.TreeSequence method) Y2() (tskit.TreeSequence method) Y3() (tskit.TreeSequence method)
