This repository contains well-established datasets for interpretable and reliable protein language model (pLM) benchmarking.
All included datasets are listed below. Details and files can be found in the respective folders.
The following experimental datasets can be found on a separate directory. They are not part of the official release.
- (Supervised) binding
- Known limitation: Dataset size
- (Supervised) disorder_trizod
- Known limitation: Work in Progress
- (Supervised) membrane
- Known limitation: Data imbalance
If you want to benchmark a new or existing pLM on these datasets, please check out one of the following methods:
- biotrainer: autoeval - Automatic evaluation of pLMs on our supervised benchmark datasets. You can find an example notebook here and compare your results on our visual dashboard.
This repository is licensed under the MIT license. This affects all provided code, dataset analysis, READMEs and steps to change, refine or improve datasets. Please review the README of each dataset for the original license(s) and terms of use.