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The operetta-compose package collects Fractal1 tasks to convert and process images from Perkin-Elmer Opera/Operetta high-content microscopes. It includes workflows for drug response profiling built upon the OME-ZARR file standard.
Available Fractal Tasks
Currently the following tasks are part of operetta-compose
| Task | Description |
|---|---|
| harmony_to_ome_zarr | Convert TIFFs which were exported from Harmony (Operetta/Opera, Perkin-Elmer) to OME-ZARR |
| stardist_segmentation | Segment cells with Stardist |
| regionprops_measurement | Take measurements using regionprops and write the features to the OME-ZARR |
| feature_classification | Classify cells using the napari-feature-classifier and write them to the OME-ZARR |
| condition_registration | Register the experimental conditions in the OME-ZARR |
1 Fractal is developed by the UZH BioVisionCenter under the lead of @jluethi under contract with eXact lab S.r.l..