mirror of https://git.FreeBSD.org/ports.git
15 lines
990 B
Plaintext
15 lines
990 B
Plaintext
The ViennaRNA Package consists of a C code library and several stand-alone
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programs for the prediction and comparison of RNA secondary structures.
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RNA secondary structure prediction through energy minimization is the most used
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function in the package. We provide three kinds of dynamic programming
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algorithms for structure prediction: the minimum free energy algorithm of
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(Zuker & Stiegler 1981) which yields a single optimal structure, the partition
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function algorithm of (McCaskill 1990) which calculates base pair probabilities
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in the thermodynamic ensemble, and the suboptimal folding algorithm of (Wuchty
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et.al 1999) which generates all suboptimal structures within a given energy
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range of the optimal energy. For secondary structure comparison, the package
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contains several measures of distance (dissimilarities) using either string
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alignment or tree-editing (Shapiro & Zhang 1990). Finally, we provide an
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algorithm to design sequences with a predefined structure (inverse folding).
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