Local usage

All ProteoBench modules can be executed locally. Simply install the proteobench Python package from PyPI:

pip install proteobench

Check out the proteobench documentation for more information.

Step-by-step example notebook

For a hands-on, runnable walkthrough of the core pipeline (load a search engine output file, convert it to ProteoBench’s standard format, compute scores, generate a datapoint, and plot the results) without using the web app or any network access, see examples/local_usage_walkthrough.ipynb in the repository. It uses a small example file already bundled under test/data/, so it runs offline in a few seconds.