AllenVisualCodingOphys2016#

class torch_brain.datasets.AllenVisualCodingOphys2016(root=None, recording_ids=None, transform=None, split_type='poyo_plus', dirname='allen_visual_coding_ophys_2016', **kwargs)[source]#

Bases: torch_brain.datasets.mixins.CalciumImagingDatasetMixin, torch_brain.datasets.dataset.Dataset

Two-photon calcium imaging of mouse visual cortex from the Allen Brain Observatory Visual Coding dataset, recorded during presentation of visual stimuli.

Preprocessing

To download and prepare this dataset, run

brainsets prepare allen_visual_coding_ophys_2016

get_sampling_intervals(split=None)[source]#

Returns a dictionary of sampling intervals for each recording. This represents the intervals that can be sampled from each session.

This dictionary will be used by torch_brain’s Samplers to know where to sample from.

The default method returns intervals containing the entire domain of each recording. This behavior can be overridden by subclasses to give out custom sampling intervals.

Returns:: Dictionary mapping recording IDs to their time domain intervals.

apply_namespace(data, namespace)#

Apply a namespace prefix to specified nested attributes in the data.

This method modifies the data object in-place by prepending the namespace to string attributes or string arrays specified in namespace_attributes.

Can be overridden by subclasses to apply the namespace in a custom way.

Parameters:

data (Data) – The Data object to modify.
namespace (str) – The namespace prefix to prepend (e.g., “experiment1/”).

Return type:

Data

Returns:

The modified torch_brain.data.Data object (same instance, modified in-place).

get_recording(recording_id, _namespace='')#

Get lazy-loaded torch_brain.data.Data object for a recording.

Parameters:

recording_id (str) – The ID of the recording to load (same as from recording_ids()).
_namespace (str) – Optional namespace prefix to apply to attributes.

Return type:

Data

Returns:

Lazy torch_brain.data.Data object containing the full recording.

get_recording_hook(data)#

Hook method called after loading a recording in get_recording().

Subclasses can override this method to perform custom processing on recordings after they are loaded but before they are returned.

Parameters:: data (Data) – The Data object that was just loaded.

get_roi_ids()#

Return a sorted list of all ROI IDs across all recordings in the dataset.

Return type:: list[str]

property recording_ids: list[str]#: Sorted list of recording IDs in the dataset.