Welcome to SimTissue’s documentation!

Contents:

• API
  • Arbitrary shape
  • Expression patterns
  • Tissue simulation
• Tutorials
  • Tutorial to generate checkerbord cell simulation with an artbitray expression
  • Tutorial for tissue simulation with transcriptomic profile sample from scRNAseq data

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Installation

pip install simtissue

Support

If you have any questions relative to the package, please open an issue on Github.

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Citation

If you use this package for your work, please cite:

A point cloud segmentation framework for image-based spatial transcriptomic, Thomas Defard, Hugo Laporte, Mallick Ayan, Soulier Juliette, Sandra Curras-Alonso, Christian Weber, Florian Massip, José-Arturo Londoño-Vallejo, Charles Fouillade, Florian Mueller, Thomas Walter bioRxiv 2023.12.01.569528; doi: https://doi.org/10.1101/2023.12.01.569528