Computational Tools

 

 

== Folding (Structure prediction) ==

<tbody> </tbody>

Name	Online server	Sources and/or binaries
ViennaRNA	http://rna.tbi.univie.ac.at/	http://www.tbi.univie.ac.at/~ronny/RNA/index.html

 

=== See also ===

• http://en.wikipedia.org/wiki/List_of_RNA_structure_prediction_software

 

== Design (Inverse Folding) ==

<tbody> </tbody>

Name	Server	Sources and/or binaries
NUPACK	http://nupack.org/	http://nupack.org/downloads

 

== Viewers ==

=== 2D viewers ===

<tbody> </tbody>

Name	Server	Sources and/or binaries
VARNA	http://varna.lri.fr/

 

=== 3D viewers ===

<tbody> </tbody>

Name	Server	Sources and/or binaries
UCSF Chimera	http://www.cgl.ucsf.edu/chimera/	http://www.cgl.ucsf.edu/chimera/download.html

 

== Lab results analysis ==

=== Data mining ===

Here are two data mining tools that are open source and have lots of built in functionality: FAKE with GAME, or its replacement Rapid-I (it's huge). All types of modeling supported. GUI drag & drop model building.

http://sourceforge.net/projects/fakegame/

http://rapid-i.com/