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1. nebiolabs/domainator nebiolabs/domainator Public

   A flexible and modular software suite for domain-based gene neighborhood and protein search, extraction, and clustering.

   Python 16 1

2. protein_scoring protein_scoring Public

   Generating and scoring novel enzyme sequences with a variety of models and metrics

   Jupyter Notebook 68 11

3. protein_gibbs_sampler protein_gibbs_sampler Public

   Gibbs sampling for generating protein sequences

   Python 53 7

4. esmologs esmologs Public

   Local homology search powered by ESM-2 language model, foldseek, hhsuite, and hmmer.

   Jupyter Notebook 13

5. hmmer3di hmmer3di Public

   hmmer3 and easel patched to support the 3di alphabet.

   C 7

6. dbikard/genomenotebook dbikard/genomenotebook Public

   A genome browser in your Jupyter notebook

   Jupyter Notebook 30 2