.. cz-benchmarks documentation master file, created by sphinx-quickstart on Wed Mar 19 11:27:15 2025. You can adapt this file completely to your liking, but it should at least contain the root `toctree` directive. cz-benchmarks Documentation =========================== What is cz-benchmarks? ======================= cz-benchmarks is a package for standardized evaluation and comparison of machine learning models for biological applications (first, in the single-cell transcriptomics domain, with future plans to expand to additional domains). The package provides a toolkit for running containerized models, executing biologically-relevant tasks, and computing performance metrics. We see this tool as a step towards ensuring that large-scale ML Models can be harnessed to deliver genuine biological insights -- by building trust, accelerating development, and bridging the gap between ML and biology communities. Why benchmarking? Why now? ========================== Last year, CZI hosted a workshop focused on benchmarking and evaluation of ML Models in biology, and the `insights gained `_ have reinforced our commitment to supporting the development of a robust benchmarking infrastructure, which we see as critical to achieving our Virtual Cell vision. 💬 Community Feedback & Contributions ====================================== CZI welcome your feedback and contributions as we continue to improve the package. If you encounter any issues or have suggestions, please `open an issue `_ on GitHub or reach out to us at `virtualcellmodels@chanzuckerberg.com `_. You can find **cz-benchmarks** on: - `PyPI `_ – for installation and release information. - `GitHub `_ – for source code, issue tracking, and contributions. .. toctree:: :maxdepth: 1 quick_start principles how_to_guides/index notebook_examples developer_guides/index api_reference assets policy/index roadmap legal changelog_release_notes