torchcell.datasets.scerevisiae.xue2025.FattyAcidXue2025Dataset

class FattyAcidXue2025Dataset(root: str = 'data/torchcell/ffa_xue2025', io_workers: int = 0, transform: Callable[[...], Any] | None = None, pre_transform: Callable[[...], Any] | None = None, **kwargs: Any)

Bases: ExperimentDataset

Xue 2025 in-house FFA combinatorial-deletion titer dataset (5 FFAs/strain).

organism: ClassVar[Organism] = 'scerevisiae'

each loader declares its own, the build’s organism switch reads it off the class (dataset_organism), and a loader that forgot it is refused by name instead of inheriting an organism it may not have.

Type:

The host organism every record describes. Annotated here WITHOUT a value

property experiment_class: type[Experiment]

Experiment schema class produced by this dataset.

property reference_class: type[ExperimentReference]

Experiment-reference schema class produced by this dataset.

property raw_file_names: list[str]

The mirrored raw-titer xlsx (Abbreviations + raw-titer sheets).

download() → None

Copy the pinned library xlsx into raw_dir and verify its sha256.

process() → None

Parse the raw-titer sheet into per-strain Metabolite experiments; write LMDB.

preprocess_raw(df: DataFrame, preprocess: dict[str, Any] | None = None) → DataFrame

Preprocessing is handled inside process() for this dataset.

create_experiment() → None

Experiment construction is handled inline in process() for this dataset.