Improving Protein Fold Recognition by Extracting Fold-specific Features from Predicted Residue-residue Contacts
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README.md

DeepFR

Improving Protein Fold Recognition by Extracting Fold-specific Features from Predicted Residue-residue Contacts

Requirements

  • caffe>=1.0
  • numpy>=1.7.1
  • scipy>=0.13.2
  • biopython>=1.68
  • matplotlib>=1.3.1
  • scikit-learn>=0.18.1

Installation

Usage

Usage: ./scripts/Run_DeepFR.sh <target> <seqfile> <outdir>

Run ./scripts/Run_DeepFR.sh d1a3aa_ examples/d1a3aa_.fasta outdir and you can find the .rank file for each template in outdir.