Consider moving the function `extract_ripp_sequences()` in `run_nlpprecursor.py` to a new script `extract_nlpprecursor_sequences.py`

Arcadia-Science / peptigate

Peptigate ("peptide" + "investigate") predicts bioactive peptides from transcriptome assemblies or sets of proteins.

MIT License

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Open taylorreiter opened 7 months ago

taylorreiter commented 7 months ago

Making this change would:

make the setup more consistent with how deeppeptide and plmutils are run
divorce the running of nlpprecursor from the parsing of sequences. If parsing fails, we don't have to sit through a compute-intensive prediction step again.
probably make #30 simpler