Dear all :)
By the way, I havent tested Dangle software yet but could you tell me any
other software wich I could use for torsion angles measurements?
As I've mentioned previously I want to calculate different torsions for
enssemble of pdb structures and then plot this values on rammachandran
plots ( something like I've done via PyMol)
Also I'd like to calculate energy difference of the particular structure in
accordance to the changing in torsions.
What I could use for this purposes besides pymol?
Thanks again,
James
2011/11/18 Thomas Holder <[email protected]>
> Hi James,
>
> in principle every python module can be used together with PyMOL!
>
> With matplotlib I had trouble opening plots on screen because both PyMOL
> and matplotlib use Tk. But writing plots to files (png, eps, ...) with
> matplotlib should be no problem I guess.
>
> I again updated
> http://pymolwiki.org/index.**php/DynoPlot<http://pymolwiki.org/index.php/DynoPlot>to
> enable postscript export (was quite easy).
>
> Cheers,
> Thomas
>
>
> On 11/18/2011 10:31 AM, James Starlight wrote:
>
>> Thomas, hello!
>>
>> In the past I've wrote some scripts in Python biological software but in
>> that case I've used matlibplot python module for ploting my graphs.
>> Does this module supported by PyMol?
>>
>>
>> James
>>
>>
>> 2011/11/18 Thomas Holder <[email protected]
>> <mailto:speleo3@users.**sourceforge.net <[email protected]>>>
>>
>>
>> Hi James,
>>
>>
>> by the way how I could save that plots in desired format
>> Finally is it possible to make legend on that plot? E.g I want
>> indicate
>> what marker correspond to what SS and provide my plot with the
>> colour
>> description ( what colour correspond to what pdb structure ).
>> How I could make those things?
>>
>>
>> I guess the easyest way is to take screenshots and add the legend
>> with some real drawing tool (like Illustrator, Inkscape, ...).
>>
>> If you know how to script in python, you may modify the script to
>> export the canvas as postscript:
>>
>> self.canvas.postscript(file='/**__tmp/canvas.ps <http://canvas.ps>')
>>
>>
>>
>> Cheers,
>> Thomas
>>
>> --
>> Thomas Holder
>> MPI for Developmental Biology
>>
>>
>>
>
> --
> Thomas Holder
> MPI for Developmental Biology
>
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