hstrat
1.11.7
Overview
Quickstart
Demo: Real-time Ping Derby
Under the Hood
Stratum Retention Policies
API Reference
hstrat
frozen_instrumentation
genome_instrumentation
hstrat
assemblage_from_records
ballpark_patristic_distance_between
ballpark_rank_of_mrca_between
ballpark_ranks_since_mrca_with
build_distance_matrix_biopython
build_distance_matrix_numpy
build_tree
build_tree_nj
build_tree_trie
build_tree_trie_ensemble
build_tree_upgma
calc_definitive_max_rank_of_first_retained_disparity_between
calc_definitive_max_rank_of_last_retained_commonality_between
calc_definitive_min_ranks_since_first_retained_disparity_with
calc_definitive_min_ranks_since_last_retained_commonality_with
calc_min_implausible_spurious_consecutive_differentia_collisions_between
calc_patristic_distance_bounds_between
calc_probability_differentia_collision_between
calc_rank_of_earliest_detectable_mrca_among
calc_rank_of_earliest_detectable_mrca_between
calc_rank_of_first_retained_disparity_between
calc_rank_of_last_retained_commonality_between
calc_rank_of_mrca_bounds_among
calc_rank_of_mrca_bounds_between
calc_rank_of_mrca_bounds_provided_confidence_level
calc_rank_of_mrca_uncertainty_among
calc_rank_of_mrca_uncertainty_between
calc_ranks_since_earliest_detectable_mrca_with
calc_ranks_since_first_retained_disparity_with
calc_ranks_since_last_retained_commonality_with
calc_ranks_since_mrca_bounds_provided_confidence_level
calc_ranks_since_mrca_bounds_with
calc_ranks_since_mrca_uncertainty_with
col_from_int
col_from_packet
col_from_packet_buffer
col_from_records
col_to_ascii
col_to_dataframe
col_to_int
col_to_packet
col_to_records
col_to_specimen
compile_perfect_backtrack_phylogeny
compile_phylogeny_from_lineage_iters
descend_template_phylogeny
descend_template_phylogeny_alifestd
descend_template_phylogeny_biopython
descend_template_phylogeny_dendropy
descend_template_phylogeny_naive
descend_template_phylogeny_networkx
descend_template_phylogeny_posthoc
diff_retained_ranks
does_definitively_have_no_common_ancestor
does_definitively_share_no_common_ancestor
does_have_any_common_ancestor
does_share_any_common_ancestor
estimate_patristic_distance_between
estimate_rank_of_mrca_between
estimate_rank_of_mrca_maximum_likelihood
estimate_rank_of_mrca_naive
estimate_rank_of_mrca_unbiased
estimate_ranks_since_mrca_with
evolve_fitness_trait_population
get_hstrat_version
get_last_common_stratum_between
get_nth_common_rank_between
iter_perfect_backtrack_lineage
mrca_uncertainty_absolute_barplot
mrca_uncertainty_relative_barplot
pack_differentiae
pack_differentiae_bytes
pack_differentiae_str
policy_from_records
policy_panel_animate
policy_panel_plot
policy_to_records
policy_to_records()
pop_from_records
pop_to_assemblage
pop_to_dataframe
pop_to_records
specimen_from_records
strata_retained_frac_lineplot
strata_retained_num_lineplot
stratum_retention_animate
stratum_retention_dripplot
unassemblage_from_records
unpack_differentiae
unpack_differentiae_bytes
unpack_differentiae_str
ArbitraryPrior
AssignDestructionTimeYoungestPlusOneTriePostprocessor
AssignOriginTimeExpectedValueTriePostprocessor
AssignOriginTimeNaiveTriePostprocessor
AssignOriginTimeNodeRankTriePostprocessor
AssignOriginTimeSampleNaiveTriePostprocessor
CompoundTriePostprocessor
DecantingPhyloTracker
ExponentialPrior
GarbageCollectingPhyloTracker
GeometricPrior
HereditaryStratigraphicAssemblage
HereditaryStratigraphicAssemblageSpecimen
HereditaryStratigraphicColumn
HereditaryStratigraphicColumnBundle
HereditaryStratigraphicSpecimen
HereditaryStratum
HereditaryStratumOrderedStoreDict
HereditaryStratumOrderedStoreList
HereditaryStratumOrderedStoreTree
MrcaUncertaintyAbsExactEvaluator
MrcaUncertaintyAbsUpperBoundEvaluator
MrcaUncertaintyRelExactEvaluator
MrcaUncertaintyRelUpperBoundEvaluator
NumStrataRetainedExactEvaluator
NumStrataRetainedUpperBoundEvaluator
PeelBackConjoinedLeavesTriePostprocessor
PerfectBacktrackHandle
PropertyAtLeastParameterizer
PropertyAtMostParameterizer
PropertyExactlyParameterizer
SampleAncestralRollbacksTriePostprocessor
UniformPrior
UnsatisfiableParameterizationRequestError
juxtaposition
phylogenetic_inference
serialization
stratum_retention_strategy
stratum_retention_viz
test_drive
Publications & Presentations
Projects Using hstrat
Citing
Contributing
Credits
History
Indices
hstrat
API Reference
hstrat
hstrat
policy_to_records
View page source
policy_to_records
policy_to_records
(
policy
:
Callable
)
→
Dict
Serialize a stratum retention policy to a dict composed of builtin types.