arg-needle-lib Python API Reference

These pages describe the API of arg-needle-lib’s public Python functions. These are functions that can be called after import arg_needle_lib. Be sure to also check out the high-level documentation of the arg-needle and arg-needle-lib Python packages.

Contents:

• arg_needle_lib
  • ARG
  • ARGEdge
  • ARGNode
  • DescendantList
  • Mutation
  • Root
  • Site
  • arg_to_newick()
  • arg_to_tskit()
  • association_diploid_all()
  • association_diploid_mutation()
  • bitset_volume_map()
  • compute_grm()
  • deserialize_arg()
  • exact_arg_grm()
  • generate_m_mutations()
  • generate_mutations()
  • get_genotype()
  • get_mutations_matrix()
  • gower_center()
  • haploid_grm_to_diploid()
  • impute()
  • kc2_length_stab()
  • kc2_special_stab()
  • kc2_tmrca_sv_stab()
  • local_volume()
  • monte_carlo_arg_grm()
  • mutation_best()
  • mutation_match()
  • mutation_match_all()
  • num_lineages()
  • rf_resolve_stab()
  • rf_total_variation_stab()
  • row_column_center()
  • serialize_arg()
  • stab_return_all_bitsets()
  • total_volume()
  • trim_arg()
  • tskit_to_arg()
  • validate_serialized_arg()
  • write_bitsets()
  • write_grm()
  • write_mutations_to_haps()

Indices and tables

• Index

• Module Index

• Search Page