The repository is a collection of scripts used in the ScOpenLab for the registration of multiomics datasets. The repository is still a work in progress, and scripts/docs will be updated.
Most scripts are adaptations of the registration workflow shown at: https://spatialdata.scverse.org/en/stable/tutorials/notebooks/notebooks/examples/alignment_using_landmarks.html The scripts automate the workflow by using SIFT(https://docs.opencv.org/4.x/da/df5/tutorial_py_sift_intro.html) to identify landmarks for the registration, instead of having the user manually selecting landmarks.
The repository is divided by technologies being registered:
- Xenium-CODEX
- Xenium-COMET
- ...
There is also a folder with instructions and scripts for visualization with Napari:
Please find more detailed instructions in each subfolder.