Comments on: Blender in visualization of molecules http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/ visualization, protein science, open science and freelancing science Sun, 11 Dec 2011 09:03:33 +0000 hourly 1 http://wordpress.com/ By: Monica http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-867 Mon, 03 Aug 2009 08:18:43 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-867 Hi everyone!!,
sorry I never came back to reply. We are restructuring our website, so please email me for blender scripts to do protien work. Although somebasic features are will defined, the major aim of our work is to have proteins moving, as in animation, but based on biological dataset.
This is not fully adjusted yet (it is difficult!), but as soon as we have it all set, we will:
post it everywhere
record a tutorial
be open for further developments

Thanks for your interest, and just mail me if you want the scripts.

Monica

]]> By: nah sivar http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-670 Sat, 14 Feb 2009 15:24:13 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-670 Could you provide pointers (or tutorials) to get one started with playing with PDB in Blender?

it will be nice if the importing of pdb, & doing things with it is presented for someone really new to Blender.

akin to starting with Blender by playing with PDB strcutures ?!

someone plz.,

]]> By: nah sivar http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-669 Sat, 14 Feb 2009 12:33:56 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-669 Monica, could you point us to the URL / Download Link ?

Also a general purpose tutorial (basic to advanced , of how to start with a PDB file , go & create such beautiful images), will be great
along with a consolidated post of all the other such tools (with not so steep learning curve ) will be helpful

]]> By: Pawel Szczesny http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-625 Thu, 08 Jan 2009 10:57:17 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-625 Monica, thank you. Your work is really impressive (ATP had blown me away). I’ll sent address of your page around – there are few people interested.

Unfortunately, I’m blind or not caffeinated enough, because I cannot find any “download” link for your scripts. Can you point me to them?

]]> By: Monica http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-624 Thu, 08 Jan 2009 10:42:59 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-624 Hi,
I don’t know if anybody is still interested, but we have developed a tool for importing pdb files in Blender, and also for animating transitions among different conformations, if you have a file NMR that contains more than one.
Want to try?
Just go to our website and download the scripts. There is also a paper on our site, and on the Blender site, you can see a conference in which i describe a little in more details our work.

Will be pleased to know your comments, thanx,

]]> By: freesci http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-61 Sat, 20 Oct 2007 15:36:20 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-61 Thanks Deepak, I did try VRML, however Blender understands only version 1.0… Will look further.

Pedro, if you have a scenario I can start rendering next pictures :) . I’m not into animations, but a comic? Why not? :)

]]> By: Deepak http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-55 Thu, 18 Oct 2007 20:44:19 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-55 This was a very long time ago … and I didn’t do the images, my wife did.

What I did was open up the structures in a visualizer capable of VRML export. The VRML was then imported into FormZ and material, shadows, shapes, etc were added there. Cool applications – rendering a proton channel, showing off potential ion binding sites, etc.

]]> By: Pedro Beltrao http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-54 Thu, 18 Oct 2007 15:46:44 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-54 Lights,camera,action ! Once upon a time there lived an hemoglobin in a land called far far way :) .

]]> By: freesci http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-53 Thu, 18 Oct 2007 06:51:03 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-53 Thanks Deepak.

FormZ? I didn’t have a chance to try, but its interface looks way cleaner than Blender’s. Can you share some details (like how to get PDB file inside; I’ve spent more time on importing the structure than on rendering)?

]]> By: Deepak http://freelancingscience.com/2007/10/17/blender-in-visualization-of-molecules/#comment-52 Thu, 18 Oct 2007 06:44:00 +0000 http://freesci.wordpress.com/2007/10/17/blender-in-visualization-of-molecules/#comment-52 That’s a neat figure. A lot of the figures in my PhD thesis were done in FormZ .. definitely made a difference

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