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Survey of domain bubbles in protein sequence analysis
One of the key step in the analysis of unknown protein sequence is identification of domains that constitute that protein. There are many online tools that will search for a presence of known domains...
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Blender in visualization of molecules
Yes, you can use Blender to prepare figures for your next paper and the results for sure will look different than the ones obtained with a standard software (hemoglobin [1HBG] as example below)… But...
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Visualization of internal repeats in proteins (or DNA)
There’s a number of protein families that have internal repeats (like TPR, Armadillo, ankyrin etc.). I’m very interested in many of them for reasons I will explain in other post. Assessing arrangement...
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Skyrails and STRING
Of course I couldn’t resist not to play a little bit with Skyrails after I saw it at Flowing Data blog. Skyrails is a graph visualization system that was designed with expandability and awesome look in...
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Many Eyes and literature summary
I’m not the first one to come up with this idea – Ntino posted about it before. However, I didn’t really understand before how powerful it could be. Using Many Eyes visualization capabilities I’ve...
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Qutemol and Ubuntu – native support
Image via Wikipedia A week ago I got an email from a long-time-no-see friend, Marcin Feder, with information that Qutemol works fine on the Hardy and Gutsy versions of Ubuntu (binary packages were...
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Photography is not a hobby. Updated CV and feedback request.
Yesterday I asked over at FriendFeed for the feedback on my early attempt of making visual CV (big thanks to all who commented). Here’s a revised version that hopefully looks much better. The key to...
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Bioinformatics is a visual analytics (sometimes)
Short description of my research interest is “I do proteins” (I took this phrase from my friend Ana). I try to figure out what particular protein, protein family, or set of proteins does in the wider...
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Another collaborative environment: Project Wonderland
This is a short post on the Sun’s Project Wonderland. Citing from its home page Project Wonderland is a 100% Java and open source toolkit for creating collaborative 3D virtual worlds. Within those...
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