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        "author": "M. Michel",
        "author_email": "guy.inkognito42@gmail.com",
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        "description": "==========\r\nContactVis\r\n==========\r\n\r\nPython package for simple protein residue-residue contact map plotting. The tool can be used from python like this::\r\n\r\n    #!/usr/bin/env python\r\n    \r\n    from contactvis import plot_contact_map\r\n\r\n    plot_contact_map.plot_map(fasta_filename, contact_filename, factor,\r\n    c2_filename='', psipred_horiz_fname='', psipred_vert_fname='', \r\n    pdb_filename='', is_heavy=False, chain='', sep=',', outfilename='')\r\n\r\n\r\nOr from command line::\r\n\r\n    plot_contact_map.py [-h] [-o OUTFILE] [-f FACTOR] [--c2 C2] [--psipred_horiz PSIPRED_HORIZ] \r\n    [--psipred_vert PSIPRED_VERT] [--pdb PDB] [--heavy] [--chain CHAIN] fasta_file contact_file\r\n\r\n\r\nTo reproduce the different examples in the ``test`` folder run the following commands:\r\n\r\nSimple map of the given contact file with coloring according to contact probability::\r\n\r\n    python ../plot_contact_map.py sequence.fasta predicted.contacts -o cm_simple.pdf\r\n\r\nComparison to contacts from the native PDB structure (pairwise CB-atom distance\r\nwith 8\u00c5 cutoff)::\r\n\r\n    python ../plot_contact_map.py sequence.fasta predicted.contacts -o cm_pdb.pdf --pdb native_structure.pdb\r\n\r\nCompare two different predicted contact maps to each other and to a native PDB\r\nstructure and include secondary structure information along the diagonal (red: helix, blue: sheet)::\r\n    \r\n    python ../plot_contact_map.py sequence.fasta predicted.contacts -o cm_compare_pdb.pdf --pdb native_structure.pdb --c2 predicted.contacts2 --psipred_horiz psipred.horiz",
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