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Machine learning model to predict inhibitory interactions in microbes

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Antibiotic prediction

  1. train_classifiers.sh - Script that trains the classifiers for BGC activity prediction (antibacterial, antifungal, etc.)
  2. predict_function.sh - Script that predict the activity of BGCs for a given genome
  3. multiple_predict_function.py - Script that runs antismash and rgi and predicts the activity of a list of genomes

Example command to run the workflow

python multiple_predict_function.py path/genome1 path/genome2 --output_dir outputs --no_SSN True

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