sequence_expansion

Position-safe expansion and reduction for semicolon-separated protein sequences.

Module Contents

class sequence_expansion.ExpandedSequence

One protein-sequence candidate from an input row.

class sequence_expansion.SequenceExpansionPlan

A positional mapping from input rows to split protein sequences.

class sequence_expansion.TargetPredictionUnit

One flattened engine input unit after sequence/substrate adaptation.

class sequence_expansion.TargetExpansionPlan

Position-safe mapping between engine units and original reaction rows.

sequence_expansion.split_sequence_list(value: Any) → list[str]

Split a semicolon-separated protein list, trimming empty fragments.

sequence_expansion.count_multi_sequence_rows(values: Iterable[Any]) → int

Return the number of rows containing more than one protein token.

sequence_expansion.reduce_sequence_predictions(*, plan: TargetExpansionPlan, target: str, child_predictions: Sequence[Any], child_sources: Sequence[str], child_errors: dict[int, str] | None, child_details: Sequence[str] | None, reaction_count: int) → ReducedSequenceResults

Reduce flattened sequence/substrate child results back to input rows.