Fractal UZH Converters
A collection of Fractal tasks to convert High-Content Screening (HCS) plate data from several microscopes into OME-Zarr format.
Tasks
| Task | Use case |
|---|---|
Convert Operetta Plate to OME-Zarr |
Operetta / Opera Phenix (Revvity) HCS plates. |
Convert Evident ScanR Plate to OME-Zarr |
ScanR (Evident) HCS plates. |
Convert Yokogawa CQ3K Plate to OME-Zarr |
CQ3K (Yokogawa) HCS plates. |
Convert Yokogawa CellVoyager Plate to OME-Zarr |
CellVoyager (Yokogawa) HCS plates. |
Convert MD ImageXpress HCS.ai Plate to OME-Zarr |
ImageXpress HCS.ai (Molecular Devices) HCS plates. |
Convert Custom TIFF HCS Plate to OME-Zarr |
Custom TIFF HCS plates from any source. |
Convert Custom TIFF Images to OME-Zarr |
Custom TIFF single images from any source. |
Each task is a Fractal compound task: an init step parses the microscope metadata and builds the parallelization list, and a compute step writes the image data well-by-well (or image-by-image).
Installation
pip install fractal-uzh-converters
Part of the Fractal OME-Zarr converters ecosystem
This converter is a thin, format-specific layer built on
ome-zarr-converters-tools,
the shared engine that handles tiling, image registration, and OME-Zarr writing for
the whole Fractal converter family. Because they all share that engine, every
converter offers the same options, behavior, and development workflow.
Sibling converters built on the same tooling:
fractal-czi-converters— Zeiss.czifractal-lif-converters— Leica.liffractal-nd2-converters— Nikon.nd2
Documentation
Full documentation — including the supported file layouts, all converter parameters, and the condition-table format — is available at https://fractal-analytics-platform.github.io/fractal-uzh-converters/.
1 maintainer
Metadata
1 maintainer
Release files for fractal-uzh-converters 0.7.1
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