Inscopix segmentation data conversion#
Install NeuroConv with the additional dependencies necessary for reading Inscopix data.
Convert Inscopix segmentation data to NWB using InscopixSegmentationInterface.
>>> from datetime import datetime
>>> from zoneinfo import ZoneInfo
>>> from pathlib import Path
>>> from neuroconv.datainterfaces import InscopixSegmentationInterface
>>>
>>> file_path = OPHYS_DATA_PATH / "segmentation_datasets" / "inscopix" / "cellset.isxd"
>>> interface = InscopixSegmentationInterface(file_path=file_path, verbose=False)
>>>
>>> metadata = interface.get_metadata()
>>> # For data provenance we add the time zone information to the conversion
>>> session_start_time = metadata["NWBFile"]["session_start_time"].replace(tzinfo=ZoneInfo("US/Pacific"))
>>> metadata["NWBFile"].update(session_start_time=session_start_time)
>>>
>>> # Run the conversion
>>> nwbfile_path = f"{path_to_save_nwbfile}"
>>> interface.run_conversion(nwbfile_path=nwbfile_path, metadata=metadata, mask_type="pixel")