| Name : ViennaRNA
| |
| Version : 1.5
| Vendor : BioRPMS http://apt_bea_ki_se/
|
| Release : 3.bio.fc3
| Date : 2005-02-10 12:21:43
|
| Group : Applications/Scientific
| Source RPM : ViennaRNA-1.5-3.bio.fc3.src.rpm
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| Size : 4.82 MB
| |
| Packager : Bent Terp < Bent_Terp_bea_ki_se>
| |
| Summary : RNA Secondary Structure Prediction and Comparison
|
Description :
The Vienna RNA Package consists of a C code library and several stand-alone programs
for the prediction and comparison of RNA secondary structures.
RNA secondary structure prediction through energy minimization is the most used
function in the package. We provide three kinds of dynamic programming algorithms
for structure prediction: the minimum free energy algorithm of (Zuker & Stiegler 1981)
which yields a single optimal structure, the partition function algorithm of (McCaskill 1990)
which calculates base pair probabilities in the thermodynamic ensemble, and the
suboptimal folding algorithm of (Wuchty et.al 1999) which generates all suboptimal
structures within a given energy range of the optimal energy. For secondary structure
comparison, the package contains several measures of distance (dissimilarities) using
either string alignment or tree-editing (Shapiro & Zhang 1990). Finally, we provide an
algorithm to design sequences with a predefined structure (inverse folding).
|
