[BiO BB] Save protein structure image as an adobe SVG format file
marchywka at hotmail.com
Tue Nov 25 09:17:21 EST 2008
> From: boris.steipe at utoronto.ca
> Date: Mon, 24 Nov 2008 21:15:03 -0500
> To: bbb at bioinformatics.org
> Subject: Re: [BiO BB] Save protein structure image as an adobe SVG format file
> Simple Z-sorting is not intersecting spheres.
> If it's any non-trivial vector graphic representation you are trying
> to do, you might consider the following workflow:
> 3D-viewer -> View Matrix -> Molscript -> PS -> ps2svg
there is something called bkchem,
and if you look at discussions the viewers don't obviously have svg output options.
Certainly if you can't find direct svg output, conversion from another model-preserving
output format would be great. But, I wouldn't dismiss the script approach immediately
depending on your ultimate goals. A scriptable viewer could generate many views but you
could also write a script without the viewer.
Spheres aren't that hard for z-sorting,
> On 24-Nov-08, at 7:23 PM, Mike Marchywka wrote:
>> I guess the real question is, " what are you trying to do?" You could
>> probably write a perl script to do this. The pdb is ascii, you just
>> need to project
>> 3D onto 2D and get some atom colors and radii. SVG AFAIK is all ascii
>> XML which is easy to generate from a script.
>> If you take all the atoms, project, sort on Z ( distance from viewer),
>> and generat XML that would probably give you what you need.
>> the code to draw circles is pretty simple,
>> http://www.w3.org/TR/SVG11/shapes.html> Date: Tue, 25 Nov 2008
>> 07:36:35 +0800> From: shreyasee.pradhan at gmail.com> To:
>> bbb at bioinformatics.org> Subject: Re: [BiO BB] Save protein
>> structure image as an adobe SVG format file>> Hi,>> For viewing
>> PDB files you can use Swiss PDB viewer software. Its free !!!>>>
>> On Fri, Nov 21, 2008 at 11:14 PM, Xiaowei Jiang
>> wrote:>>> Hi fellows,>>>> Does anyone
>> know a PDB viewer software or a way, in which I can save image>>
>> directly as an adobe SVG format file?>>>> Thanks in advance!!>>>
>>> Cheers,>> Xiaowei>>>>>>>>>>
>> _______________________________________________>> BBB mailing
>> list>> BBB at bioinformatics.org>> http://www.bioinformatics.org/
>> mailman/listinfo/bbb>>>>>> --> Thanks,> Shreyasee>
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