Fractal CZI Converters
A collection of Fractal tasks
to convert Zeiss .czi files into OME-Zarr
format.
Tasks
| Task | Use case |
|---|---|
Convert CZI Plate to OME-Zarr |
Convert one or more .czi files containing a multi-well plate acquisition into an OME-Zarr HCS plate. |
Convert CZI Image to OME-Zarr |
Convert the scenes of a .czi file into a single standalone OME-Zarr image. |
Each task is a Fractal compound task: an init step parses the .czi
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-czi-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-lif-converters— Leica.liffractal-nd2-converters— Nikon.nd2fractal-uzh-converters— HCS plates (Operetta, ScanR, CQ3K, CellVoyager, ImageXpress, custom TIFF)
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-czi-converters/.
1 maintainer
Metadata
1 maintainer
Release files for fractal-czi-converters 0.1.2
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