scvi.dataloaders.AnnDataLoader#
- class scvi.dataloaders.AnnDataLoader(adata_manager, shuffle=False, indices=None, batch_size=128, data_and_attributes=None, drop_last=False, iter_ndarray=False, **data_loader_kwargs)[source]#
DataLoader for loading tensors from AnnData objects.
- Parameters:
adata_manager (AnnDataManager) –
AnnDataManager
object with a registered AnnData object.shuffle – Whether the data should be shuffled
indices – The indices of the observations in the adata to load
batch_size (Optional[int]) – minibatch size to load each iteration
data_and_attributes (Optional[dict]) – Dictionary with keys representing keys in data registry (
adata_manager.data_registry
) and value equal to desired numpy loading type (later made into torch tensor). IfNone
, defaults to all registered data.data_loader_kwargs – Keyword arguments for
DataLoader
iter_ndarray (bool) – Whether to iterate over numpy arrays instead of torch tensors
drop_last (bool) –
Attributes table#
Methods table#
Attributes#
multiprocessing_context
dataset
- AnnDataLoader.dataset: Dataset[T_co]#
batch_size
num_workers
pin_memory
drop_last
timeout
sampler
- AnnDataLoader.sampler: Union[Sampler, Iterable]#
pin_memory_device
prefetch_factor
Methods#
check_worker_number_rationality