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ramachandran plot

by abhi4.amity
on Feb 08, 2013 at 10:31 UTC ( #1017791=perlquestion: print w/replies, xml ) Need Help??

abhi4.amity has asked for the wisdom of the Perl Monks concerning the following question:

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Re: ramachandran plot
by zentara (Archbishop) on Feb 08, 2013 at 10:35 UTC
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Re: ramachandran plot
by Corion (Pope) on Feb 08, 2013 at 10:34 UTC

    This is not how this forum works. This is not a "Do my homework for me" forum.

    We will gladly help you with the problems you have with your existing code. Please show us the code you have, and tell us exactly what problems you have with your code.

    In addition, it might be helpful to include a (link to a) description of what a Ramachandran plot is for those not familiar with it. The more relevant information you provide, the easier it is for somebody to help you with the task at hand.

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Re: ramachandran plot
by Plankton (Vicar) on Feb 08, 2013 at 21:13 UTC
Re: ramachandran plot
by igelkott (Priest) on Feb 08, 2013 at 22:28 UTC

    While I must agree that this wasn't a good way to ask a question, it really isn't as simple as a quick search in Wikipedia to find an appropriate module for this if you're unfamiliar with the domain. You'll still need to do some work on your own (or find someone else) but here's a few hints beyond the obvious:

    • PerlMol -- a bit out of date
    • Bio::PDB::Structure -- assumes PDB format
    • Do it purely mathematically (checking the convention for +/-).

    These will allow you to get the data (look for the word 'dihedral'). The actual plotting can be done with any of a number of modules (ie, this part is general so check CPAN).

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