Index

A

aa_composition() (in module abpytools.features.composition) aa_distribution() (in module abpytools.features.composition) aa_frequency() (in module abpytools.features.composition) ab_charge() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) ab_ec() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) ab_format() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) ab_hydrophobicity_matrix() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) ab_molecular_weight() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) ab_numbering() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) ab_numbering_table() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) ab_pi() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) ab_region_index() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) ab_regions() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) ab_total_charge() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) abpytools (module) abpytools.analysis (module) abpytools.analysis.amino_acid_freq (module) abpytools.analysis.analysis_helper_functions (module) abpytools.analysis.cdr_length (module) abpytools.analysis.distance (module) abpytools.analysis.distance_metrics (module) abpytools.analysis.distance_metrics_ (module) abpytools.analysis.sequence_alignment (module) abpytools.core (module) abpytools.core.base (module) abpytools.core.cache (module) abpytools.core.chain (module) abpytools.core.chain_collection (module) abpytools.core.fab (module) abpytools.core.fab_collection (module) abpytools.core.flags (module)

abpytools.core.flags.backend (module) abpytools.core.flags.chain (module) abpytools.core.flags.formats (module) abpytools.core.flags.hydrophobicity (module) abpytools.core.flags.numbering (module) abpytools.core.flags.options (module) abpytools.core.flags.pi (module) abpytools.core.formats (module) abpytools.core.formats.chain_pb2 (module) abpytools.core.formats.fab_pb2 (module) abpytools.core.formats.utils (module) abpytools.core.helper_functions (module) abpytools.core.utils (module) abpytools.cython_extensions (module) abpytools.cython_extensions.convert_py_2_C (module) abpytools.features (module) abpytools.features.composition (module) abpytools.features.regions (module) abpytools.home (module) abpytools.utils (module) abpytools.utils.abpytools_exceptions (module) abpytools.utils.data_loader (module) abpytools.utils.downloads (module) abpytools.utils.math_utils (module) abpytools.utils.python_config (module) add() (abpytools.core.cache.Cache method) (abpytools.utils.math_utils.Vector method) add_Chain_to_protobuf() (in module abpytools.core.utils) align_sequences() (abpytools.analysis.sequence_alignment.SequenceAlignment method) aligned_sequence (abpytools.core.Chain attribute) (abpytools.core.Fab attribute) (abpytools.core.chain.Chain attribute) (abpytools.core.fab.Fab attribute) aligned_sequences (abpytools.analysis.sequence_alignment.SequenceAlignment attribute) (abpytools.core.ChainCollection attribute) (abpytools.core.FabCollection attribute) (abpytools.core.chain_collection.ChainCollection attribute) (abpytools.core.fab_collection.FabCollection attribute) amino_acid_charge() (in module abpytools.core.chain) AminoAcidFreq (class in abpytools.analysis.amino_acid_freq) append() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) auto_covariance() (in module abpytools.features.composition)

B

ByteSize() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method)

C

Cache (class in abpytools.core.cache) calculate_cdr() (in module abpytools.core.chain) calculate_charge() (in module abpytools.core.chain) calculate_ec() (in module abpytools.core.chain) calculate_hydrophobicity_matrix() (in module abpytools.core.chain) calculate_mw() (in module abpytools.core.chain) calculate_pi() (in module abpytools.core.chain) calculate_scores() (in module abpytools.analysis.analysis_helper_functions) cdr_lengths() (abpytools.features.regions.ChainDomains method) cdr_sequences() (abpytools.features.regions.ChainDomains method) CDRLength (class in abpytools.analysis.cdr_length) chain (abpytools.core.Chain attribute) (abpytools.core.ChainCollection attribute) (abpytools.core.chain.Chain attribute) (abpytools.core.chain_collection.ChainCollection attribute) Chain (class in abpytools.core) (class in abpytools.core.chain) (class in abpytools.core.formats.chain_pb2) Chain.Region (class in abpytools.core.formats.chain_pb2) chain_type (abpytools.core.formats.chain_pb2.Chain attribute) CHAIN_TYPE_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain attribute) ChainCollection (class in abpytools.core) (class in abpytools.core.chain_collection) (class in abpytools.core.formats.chain_pb2) ChainDomains (class in abpytools.features.regions) chains (abpytools.core.formats.chain_pb2.ChainCollection attribute)

CHAINS_FIELD_NUMBER (abpytools.core.formats.chain_pb2.ChainCollection attribute) charge (abpytools.core.chain_collection.ChainCollection attribute) (abpytools.core.ChainCollection attribute) charge() (abpytools.core.Fab method) (abpytools.core.FabCollection method) (abpytools.core.fab.Fab method) (abpytools.core.fab_collection.FabCollection method) CHOTHIA (abpytools.core.formats.chain_pb2.Chain attribute) CHOTHIA_EXT (abpytools.core.formats.chain_pb2.Chain attribute) chou_pseudo_aa_composition() (in module abpytools.features.composition) Clear() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method) ClearField() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method) CollectionBase (class in abpytools.core.base) composition() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) cosine_distance() (in module abpytools.analysis.distance_metrics) cosine_distance_() (in module abpytools.analysis.distance_metrics_) cosine_similarity() (in module abpytools.analysis.distance_metrics)

D

DataLoader (class in abpytools.utils.data_loader) DESCRIPTOR (abpytools.core.formats.chain_pb2.Chain attribute) (abpytools.core.formats.chain_pb2.Chain.Region attribute) (abpytools.core.formats.chain_pb2.ChainCollection attribute) (abpytools.core.formats.fab_pb2.Fab attribute) (abpytools.core.formats.fab_pb2.FabCollection attribute) determine_chain_type() (abpytools.core.Chain static method) (abpytools.core.chain.Chain static method) DiscardUnknownFields() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method)

distance_matrix() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) distance_to_first() (in module abpytools.features.composition) DistancePlot (class in abpytools.analysis.distance) dot_product() (abpytools.utils.math_utils.Vector method) dot_product_() (in module abpytools.utils.math_utils) Download (class in abpytools.utils.downloads) download() (abpytools.utils.downloads.Download method) (in module abpytools.utils.downloads)

E

empty_cache() (abpytools.core.cache.Cache method) euclidean_distance() (in module abpytools.analysis.distance_metrics) exp() (abpytools.utils.math_utils.Vector method) extinction_coefficient() (abpytools.core.Fab method) (abpytools.core.fab.Fab method)

extinction_coefficients() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) (abpytools.core.FabCollection method) (abpytools.core.fab_collection.FabCollection method)

F

Fab (class in abpytools.core) (class in abpytools.core.fab) (class in abpytools.core.formats.fab_pb2) FabCollection (class in abpytools.core) (class in abpytools.core.fab_collection) (class in abpytools.core.formats.fab_pb2) fabs (abpytools.core.formats.fab_pb2.FabCollection attribute) FABS_FIELD_NUMBER (abpytools.core.formats.fab_pb2.FabCollection attribute) fasta_ChainCollection_parser() (in module abpytools.core.utils) FindInitializationErrors() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method)

framework_length() (abpytools.features.regions.ChainDomains method) framework_sequences() (abpytools.features.regions.ChainDomains method) FromString() (abpytools.core.formats.chain_pb2.Chain static method) (abpytools.core.formats.chain_pb2.Chain.Region static method) (abpytools.core.formats.chain_pb2.ChainCollection static method) (abpytools.core.formats.fab_pb2.Fab static method) (abpytools.core.formats.fab_pb2.FabCollection static method)

G

germline (abpytools.core.chain_collection.ChainCollection attribute) (abpytools.core.ChainCollection attribute) (abpytools.core.FabCollection attribute) (abpytools.core.fab_collection.FabCollection attribute) germline_identity (abpytools.core.chain_collection.ChainCollection attribute) (abpytools.core.ChainCollection attribute) (abpytools.core.Fab attribute) (abpytools.core.FabCollection attribute) (abpytools.core.fab.Fab attribute) (abpytools.core.fab_collection.FabCollection attribute)

germline_identity_pd() (in module abpytools.core.helper_functions) get_ab_numbering() (in module abpytools.core.chain) get_data() (abpytools.utils.data_loader.DataLoader method) get_ipython_info() (in module abpytools.utils.python_config) get_numbering_scheme_from_protobuf() (in module abpytools.core.formats.utils) get_object() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) (abpytools.core.FabCollection method) (abpytools.core.fab_collection.FabCollection method) get_protobuf_numbering_scheme() (in module abpytools.core.formats.utils)

H

hamming_distance() (in module abpytools.analysis.distance_metrics) hamming_distance_() (in module abpytools.analysis.distance_metrics_) HasField() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method) heavy_chain (abpytools.core.formats.fab_pb2.Fab attribute)

HEAVY_CHAIN_FIELD_NUMBER (abpytools.core.formats.fab_pb2.Fab attribute) Home (class in abpytools.home) hydrophobicity_matrix() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) (abpytools.core.Fab method) (abpytools.core.FabCollection method) (abpytools.core.fab.Fab method) (abpytools.core.fab_collection.FabCollection method)

I

igblast_local_query() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) (abpytools.core.FabCollection method) (abpytools.core.fab_collection.FabCollection method) igblast_options() (in module abpytools.core.chain_collection) igblast_server_query() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) (abpytools.core.FabCollection method) (abpytools.core.fab_collection.FabCollection method)

init_score_matrix() (in module abpytools.analysis.analysis_helper_functions) ipython_info (abpytools.utils.python_config.PythonConfig attribute) IsInitialized() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method)

J

json_Chain_parser() (in module abpytools.core.utils) json_ChainCollection_formatter() (in module abpytools.core.utils)

json_ChainCollection_parser() (in module abpytools.core.utils) json_FabCollection_formatter() (in module abpytools.core.utils) json_FabCollection_parser() (in module abpytools.core.utils)

K

KABAT (abpytools.core.formats.chain_pb2.Chain attribute)

L

levenshtein_distance() (in module abpytools.analysis.distance_metrics) levenshtein_distance_() (in module abpytools.analysis.distance_metrics_) light_chain (abpytools.core.formats.fab_pb2.Fab attribute) LIGHT_CHAIN_FIELD_NUMBER (abpytools.core.formats.fab_pb2.Fab attribute) ListFields() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method) load() (abpytools.core.Chain method) (abpytools.core.ChainCollection method) (abpytools.core.Fab method) (abpytools.core.chain.Chain method) (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.fab.Fab method) load_alignment_algorithm() (in module abpytools.analysis.analysis_helper_functions) load_antibody_object() (in module abpytools.core.chain_collection) load_from_antibody_object() (in module abpytools.core.chain_collection) load_from_fasta() (abpytools.core.base.CollectionBase class method) (abpytools.core.ChainCollection class method) (abpytools.core.FabCollection class method) (abpytools.core.chain_collection.ChainCollection class method) (abpytools.core.fab_collection.FabCollection class method)

load_from_file() (abpytools.core.base.CollectionBase class method) load_from_json() (abpytools.core.base.CollectionBase class method) (abpytools.core.ChainCollection class method) (abpytools.core.FabCollection class method) (abpytools.core.chain_collection.ChainCollection class method) (abpytools.core.fab_collection.FabCollection class method) load_from_pb2() (abpytools.core.base.CollectionBase class method) (abpytools.core.ChainCollection class method) (abpytools.core.FabCollection class method) (abpytools.core.chain_collection.ChainCollection class method) (abpytools.core.fab_collection.FabCollection class method) load_from_string() (abpytools.core.Chain class method) (abpytools.core.chain.Chain class method) load_igblast_query() (in module abpytools.core.chain_collection) load_substitution_matrix() (in module abpytools.analysis.analysis_helper_functions) loading_status() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method)

M

make_fasta() (in module abpytools.core.chain_collection) manhattan_distance() (in module abpytools.analysis.distance_metrics) matplotlib_interactive (abpytools.utils.python_config.PythonConfig attribute) Matrix2D (class in abpytools.utils.math_utils) Matrix2D_backend (class in abpytools.utils.math_utils) MergeFrom() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method) MergeFromString() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method)

molecular_weight() (abpytools.core.Fab method) (abpytools.core.fab.Fab method) molecular_weights() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) (abpytools.core.FabCollection method) (abpytools.core.fab_collection.FabCollection method) multiply() (abpytools.utils.math_utils.Vector method) MW (abpytools.core.formats.chain_pb2.Chain attribute) MW_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain attribute)

N

n_ab (abpytools.core.chain_collection.ChainCollection attribute) (abpytools.core.ChainCollection attribute) (abpytools.core.FabCollection attribute) (abpytools.core.fab_collection.FabCollection attribute) n_cols (abpytools.utils.math_utils.Matrix2D_backend attribute) n_rows (abpytools.utils.math_utils.Matrix2D_backend attribute) name (abpytools.core.Chain attribute) (abpytools.core.Fab attribute) (abpytools.core.chain.Chain attribute) (abpytools.core.fab.Fab attribute) (abpytools.core.formats.chain_pb2.Chain attribute) (abpytools.core.formats.fab_pb2.Fab attribute) NAME_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain attribute) (abpytools.core.formats.fab_pb2.Fab attribute) names (abpytools.core.chain_collection.ChainCollection attribute) (abpytools.core.ChainCollection attribute) (abpytools.core.FabCollection attribute) (abpytools.core.fab_collection.FabCollection attribute) needleman_wunsch() (in module abpytools.analysis.analysis_helper_functions) norm() (abpytools.utils.math_utils.Vector method) (in module abpytools.analysis.distance_metrics)

numbering (abpytools.core.formats.chain_pb2.Chain attribute) NUMBERING_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain attribute) numbering_scheme (abpytools.core.Chain attribute) (abpytools.core.ChainCollection attribute) (abpytools.core.chain.Chain attribute) (abpytools.core.chain_collection.ChainCollection attribute) (abpytools.core.formats.chain_pb2.Chain attribute) NUMBERING_SCHEME_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain attribute) numbering_table() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) (abpytools.core.Fab method) (abpytools.core.FabCollection method) (abpytools.core.fab.Fab method) (abpytools.core.fab_collection.FabCollection method) numbering_table_multiindex() (in module abpytools.core.helper_functions) numbering_table_region() (in module abpytools.core.helper_functions) numbering_table_sequences() (in module abpytools.core.helper_functions) NumberingException NumberingScheme (abpytools.core.formats.chain_pb2.Chain attribute) NumericalBaseStructure (class in abpytools.utils.math_utils)

O

order_seq() (in module abpytools.features.composition)

P

pb2_add_chain() (in module abpytools.core.utils) pb2_Chain_parser() (in module abpytools.core.utils) pb2_ChainCollection_formatter() (in module abpytools.core.utils) pb2_ChainCollection_parser() (in module abpytools.core.utils) pb2_FabCollection_formatter() (in module abpytools.core.utils) pb2_FabCollection_parser() (in module abpytools.core.utils) pI (abpytools.core.formats.chain_pb2.Chain attribute) PI_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain attribute)

plot() (abpytools.analysis.amino_acid_freq.AminoAcidFreq method) plot_cdr() (abpytools.analysis.cdr_length.CDRLength method) plot_dendrogram() (abpytools.analysis.distance.DistancePlot method) plot_heatmap() (abpytools.analysis.distance.DistancePlot method) plot_helper() (abpytools.analysis.amino_acid_freq.AminoAcidFreq method) pop() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) print_aligned_sequences() (abpytools.analysis.sequence_alignment.SequenceAlignment method) PythonConfig (class in abpytools.utils.python_config)

R

region (abpytools.core.formats.chain_pb2.Chain attribute) REGION_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain attribute) region_name (abpytools.core.formats.chain_pb2.Chain.Region attribute) REGION_NAME_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain.Region attribute) region_positions (abpytools.core.formats.chain_pb2.Chain.Region attribute) REGION_POSITIONS_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain.Region attribute) regions (abpytools.core.fab_collection.FabCollection attribute) (abpytools.core.FabCollection attribute)

RegisterExtension() (abpytools.core.formats.chain_pb2.Chain static method) (abpytools.core.formats.chain_pb2.Chain.Region static method) (abpytools.core.formats.chain_pb2.ChainCollection static method) (abpytools.core.formats.fab_pb2.Fab static method) (abpytools.core.formats.fab_pb2.FabCollection static method) remove() (abpytools.core.cache.Cache method)

S

save() (abpytools.core.base.CollectionBase method) save_to_fasta() (abpytools.core.base.CollectionBase method) (abpytools.core.ChainCollection method) (abpytools.core.FabCollection method) (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.fab_collection.FabCollection method) save_to_json() (abpytools.core.base.CollectionBase method) (abpytools.core.ChainCollection method) (abpytools.core.FabCollection method) (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.fab_collection.FabCollection method) save_to_pb2() (abpytools.core.base.CollectionBase method) (abpytools.core.ChainCollection method) (abpytools.core.FabCollection method) (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.fab_collection.FabCollection method) score (abpytools.analysis.sequence_alignment.SequenceAlignment attribute) sequence (abpytools.core.Chain attribute) (abpytools.core.Fab attribute) (abpytools.core.chain.Chain attribute) (abpytools.core.fab.Fab attribute) (abpytools.core.formats.chain_pb2.Chain attribute) SEQUENCE_FIELD_NUMBER (abpytools.core.formats.chain_pb2.Chain attribute) sequence_splitter_helper() (abpytools.features.regions.ChainDomains static method) SequenceAlignment (class in abpytools.analysis.sequence_alignment) sequences (abpytools.core.chain_collection.ChainCollection attribute) (abpytools.core.ChainCollection attribute) (abpytools.core.FabCollection attribute) (abpytools.core.fab_collection.FabCollection attribute)

SerializePartialToString() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method) SerializeToString() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method) set_name() (abpytools.core.Chain method) (abpytools.core.chain.Chain method) set_numbering_scheme() (abpytools.core.chain_collection.ChainCollection method) (abpytools.core.ChainCollection method) SetInParent() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method) shape (abpytools.utils.math_utils.Matrix2D attribute) side_chain_volume() (in module abpytools.features.composition) size (abpytools.utils.math_utils.Vector attribute) size_ (abpytools.utils.math_utils.Matrix2D_backend attribute) status (abpytools.core.Chain attribute) (abpytools.core.chain.Chain attribute) subtract() (abpytools.utils.math_utils.Vector method) switch_interactive_mode() (in module abpytools.analysis.analysis_helper_functions)

T

target_sequence (abpytools.analysis.sequence_alignment.SequenceAlignment attribute) to_numbering_table() (in module abpytools.core.helper_functions) total_charge (abpytools.core.chain_collection.ChainCollection attribute) (abpytools.core.ChainCollection attribute) total_charge() (abpytools.core.Fab method) (abpytools.core.FabCollection method) (abpytools.core.fab.Fab method) (abpytools.core.fab_collection.FabCollection method)

traceback() (in module abpytools.analysis.analysis_helper_functions) triad_method() (in module abpytools.features.composition)

U

update() (abpytools.core.cache.Cache method)

V

values (abpytools.utils.math_utils.Matrix2D attribute) (abpytools.utils.math_utils.Vector attribute)

Vector (class in abpytools.utils.math_utils)

W

WhichOneof() (abpytools.core.formats.chain_pb2.Chain method) (abpytools.core.formats.chain_pb2.Chain.Region method) (abpytools.core.formats.chain_pb2.ChainCollection method) (abpytools.core.formats.fab_pb2.Fab method) (abpytools.core.formats.fab_pb2.FabCollection method)

worker() (in module abpytools.core.chain_collection)