tools

• parse
• PhenixParser
  • PhenixParser.parse()
  • PhenixParser.sort_wells()
  • PhenixParser.sort_timepoints()
• CombinedPhenixParser
• stitch
• Stitcher
  • Stitcher.get_stitching_information()
  • Stitcher.save_positions()
  • Stitcher.generate_thumbnail()
  • Stitcher.plot_qc()
  • Stitcher.stitch()
  • Stitcher.write_tif()
  • Stitcher.write_ome_zarr()
  • Stitcher.write_thumbnail()
  • Stitcher.write_spatialdata()
• ParallelStitcher
  • ParallelStitcher.write_tif_parallel()
• ml
  • datasets
  • metrics
  • models
  • plmodels
  • pretrained_models
  • transforms
  • utils