Metadata-Version: 1.0
Name: ContactVis
Version: 0.1.6
Summary: Contact map plotting for predicted protein residue-residue contacts.
Home-page: https://github.com/MMichel/contact-vis.git
Author: M. Michel
Author-email: guy.inkognito42@gmail.com
License: LICENSE.txt
Description: ==========
        ContactVis
        ==========
        
        Python package for simple protein residue-residue contact map plotting.
        
        
        Usage::
        =======
        
            #!/usr/bin/env python
            
            from contactvis import plot_contact_map
        
            plot_contact_map.plot_map(fasta_filename, contact_filename, factor, c2_filename='', psipred_filename='', pdb_filename='', is_heavy=False, chain='', sep=',', outfilename='')
        
        
        Or::
        
        ``plot_contact_map.py [-h] [-o OUTFILE] [-f FACTOR] [--c2 C2]
                            [--psipred_horiz PSIPRED_HORIZ] [--pdb PDB]
                            [--heavy] [--chain CHAIN]
                            fasta_file contact_file``
        
        
        To reproduce the different examples in the ``test`` folder run the following commands:
        
        Simple map of the given contact file with coloring according to contact probability:
        ``python ../plot_contact_map.py sequence.fasta predicted.contacts -o cm_simple``
        
        Comparison to contacts from the native PDB structure (pairwise CB-atom distance with 8Å cutoff):
        ``python ../plot_contact_map.py sequence.fasta predicted.contacts -o cm_pdb.pdf --pdb native_structure.pdb``
        
        Compare two different predicted contact maps to each other and to a native PDB structure and include secondary structure information along the diagonal (red: helix, blue: sheet):
        ``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``
        
Platform: UNKNOWN
