Thor TIFF data conversion

Install NeuroConv with the additional dependencies necessary for reading Thor TIFF data.

pip install "neuroconv[thor]"

Convert Thor TIFF imaging data to NWB using ThorImagingInterface.

>>> from pathlib import Path
>>> from neuroconv.datainterfaces import ThorImagingInterface
>>>
>>> file_path = OPHYS_DATA_PATH / "imaging_datasets" / "ThorlabsTiff" / "single_channel_single_plane" / "20231018-002" / "ChanA_001_001_001_001.tif"
>>> interface = ThorImagingInterface(file_path=file_path, channel_name="ChanA")
>>>
>>> metadata = interface.get_metadata()
>>> # Add subject information (required for DANDI upload)
>>> metadata["Subject"] = dict(subject_id="subject1", species="Mus musculus", sex="M", age="P30D")
>>>
>>> # Choose a path for saving the nwb file and run the conversion
>>> nwbfile_path = f"{path_to_save_nwbfile}"
>>> interface.run_conversion(nwbfile_path=nwbfile_path, metadata=metadata)

Note

The ThorImagingInterface is designed for imaging data acquired using ThorImageLS software and exported to TIFF format. Note that it is possible that data was acquired with a Thor microscope but not with the ThorImageLS software, in which case this interface may not work correctly.