API Reference

• OME-NGFF (OME-Zarr)
  • Convenience
    • open_ome_zarr()
  • NGFF Nodes
    • NGFFNode
    • Position
    • TiledPosition
    • Plate
• Read multi-FOV datasets
  • read_images()
• Read MM TIFF sequence
  • MicromanagerSequenceReader
    • MicromanagerSequenceReader.get_array()
    • MicromanagerSequenceReader.get_image()
    • MicromanagerSequenceReader.get_num_positions()
    • MicromanagerSequenceReader.get_zarr()
    • MicromanagerSequenceReader.hcs_position_labels
    • MicromanagerSequenceReader.read_tiff_series()
    • MicromanagerSequenceReader.shape
• Read MMStack OME-TIFF
  • MMStack
    • MMStack.close()
    • MMStack.get()
    • MMStack.hcs_position_labels
    • MMStack.items()
    • MMStack.keys()
    • MMStack.micromanager_summary
    • MMStack.read_image_metadata()
    • MMStack.root
    • MMStack.t_scale
    • MMStack.values()
    • MMStack.zyx_scale
  • MMOmeTiffFOV
    • MMOmeTiffFOV.channel_index()
    • MMOmeTiffFOV.frame_metadata()
    • MMOmeTiffFOV.t_scale
    • MMOmeTiffFOV.zyx_scale
• Read NDTiff
  • NDTiffDataset
    • NDTiffDataset.get()
    • NDTiffDataset.get_image_metadata()
    • NDTiffDataset.hcs_position_labels
    • NDTiffDataset.items()
    • NDTiffDataset.keys()
    • NDTiffDataset.micromanager_summary
    • NDTiffDataset.root
    • NDTiffDataset.str_channel_axis
    • NDTiffDataset.str_position_axis
    • NDTiffDataset.t_scale
    • NDTiffDataset.values()
    • NDTiffDataset.zyx_scale
  • NDTiffFOV
    • NDTiffFOV.channel_index()
    • NDTiffFOV.frame_metadata()
    • NDTiffFOV.t_scale
    • NDTiffFOV.zyx_scale
• Read Clear Control
  • ClearControlFOV
    • ClearControlFOV.__getitem__()
    • ClearControlFOV.channel_index()
    • ClearControlFOV.channel_names
    • ClearControlFOV.metadata()
    • ClearControlFOV.scale
    • ClearControlFOV.shape
    • ClearControlFOV.t_scale
    • ClearControlFOV.zyx_scale
• Read PTI TIFF
  • UPTIReader
    • UPTIReader.get_array()
    • UPTIReader.get_image()
    • UPTIReader.get_num_positions()
    • UPTIReader.get_zarr()
    • UPTIReader.hcs_position_labels
    • UPTIReader.shape
• Convert TIFF to OME-Zarr
  • TIFFConverter
    • TIFFConverter.__call__()

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