biopython/biopython
Parse UniProt FASTA, compute length and composition features as a sanity baseline next to embeddings
In: LABLOOP-W23 Notebook
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sokrypton/ColabFold
Colab: predict the structure of your top 2 candidates; look at them in 3D. Not used as a feature, only to build intuition and a figure
In: LABLOOP-W23 Notebook
google-deepmind/alphafold
Read the README on the AlphaFold Protein Structure Database; check if your candidates already have predicted structures there (no GPU needed)
In: LABLOOP-W23 Notebook
deepchem/deepchem
Browse "The Basic Tools of the Deep Life Sciences" tutorial list; one notebook on protein sequences, only if curious (Saturday)
In: LABLOOP-W23 Notebook