AllocationConfig

class VmaxBuilder.config.dataclasses.AllocationConfig(enabled: bool = True, method: str | None = None, options: dict[str, ~typing.Any]=<factory>, field_validation_modes: dict[str, ~VmaxBuilder.config.enums.ValidationMode]=<factory>, trim_entities: bool = True, trim_assesment_method: str = 'M_value', trim_minimum_entities_threshold: int = 3, impute_expressionless_reactions: bool = True)

Generated: validation needed.

Description:

Configuration for IFP allocation and reaction capacity staging.

Parameters:

• trim_entities (bool) – Enable gene/transcript trimming before allocation.

• trim_assesment_method (str) – Method for determining trimmable entities, defaults to “M_value”.

• impute_expressionless_reactions (bool) – Enable fallback imputation.

• trim_minimum_entities_threshold (int) – Minimum number of entities required in an IFP for iterative lowest-abundance trimming to proceed. Trimming inspects lowest-abundance entity and, if marked trimmable, removes it and repeats. If a non-trimmable entity is encountered or remaining entity count would fall below this threshold, trimming stops.

Public Methods

trim_entities
trim_assesment_method
trim_minimum_entities_threshold
impute_expressionless_reactions
enabled
field_validation_modes
method
options