pasta: Pattern Analysis for Spatial Omics daTA

This repository contains code for the pasta vignette accompanying the pasta preprint.

Disclaimer

This vignette should be a dynamic resource for people interested in spatial statistics for spatial omics data. The content is therefore subject to change. If you wish to contribute to this resource, feel free to open an issue or contact us via email.

Installing all necessary R packages

R packages are specified in renv.lock can be installed using renv::restore().

Using renv and Python

Python packages are listed in requirements.txt and can be installed via pip. An installation via renv is possible but it can happen that renv creates a virtual environment that does not locate the correct Python version and it will not be able to find the shared libraries.

Build system

Please refer to the GitHub actions on details of our website build system.

Contributions

Contributions are welcome. Please open an issue to start contributing. Please respect the Contributor Covenant code of conduct.

License

© 2024 The pasta authors. Content is published under Creative Commons CC-BY-4.0 License for the text and GPL-3 License for any code.