Code to reproduce the case studies in seqme

Example use cases of seqme

Data to run the case studies are found on gdrive. Place the downloaded FASTA files in the data directory.

Each case study is in a seperate notebook, where the setup instructions are also described.

Citation

If you use seqme in your research, consider citing our publication:

@article{mollerlarsen2025seqme,
      title={seqme: a Python library for evaluating biological sequence design}, 
      author={Rasmus Møller-Larsen and Adam Izdebski and Jan Olszewski and Pankhil Gawade and Michal Kmicikiewicz and Wojciech Zarzecki and Ewa Szczurek},
      year={2025},
      eprint={2511.04239},
      archivePrefix={arXiv},
      primaryClass={cs.LG},
      url={https://arxiv.org/abs/2511.04239}, 
}