opm-processing-v2¶
Process qi2lab opm-v2 OME-Zarr acquisitions from camera counts to registered volumes. The workflow provides camera calibration, illumination correction, RLGC deconvolution, deskewing, tile registration, fusion, and image export.
Start here¶
- Install Python dependencies and GPU support.
- Follow the first workflow on an acquisition.
- Use the command reference for arguments and options.
Find the right documentation¶
| Task | Page |
|---|---|
| Process a dataset or resume a run | Processing guide |
| Process while acquisition is running | Live acquisition |
| Register and combine stage tiles | Registration and fusion |
| Select a smaller raw-data region | ROI guide |
| Save OME-TIFFs, projections, or movies | Export guide |
| Open outputs in napari or Fiji | Viewing and troubleshooting |
| Understand axes, output files, and metadata | Data reference |
| Understand reconstruction calculations | Processing methods |
| Run a simulated acquisition | Simulation examples |
| Contribute changes or run tests | Development |
The Python reference is collected from source docstrings. Development pages describe contributing, running tests, and building documentation.