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README.md

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Python scripts used for Akoya Academy Webinar on June 22nd, 2023

To create anaconda environment in Windows, run conda env create -f sscore.yml

To activate and run the jupyter notebook: conda activate sscore, followed by jupyter-notebook --port 8888 and navigate to the notebooks/ folder.

The data files (too large for GitHub) can be downloaded from here.

Other Resources:

  1. QuPath: Latest version
  2. QuPath StatDist: Extension
  3. QuPath StarDist: Model files
  4. Scimap: Latest version
  5. Automated Phenotyping in R: CELESTA
  6. Stiching unmixed tif files from inForm: Groovy script