sci-biology/vienna-rna/metadata.xml

<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
  <herd>sci-biology</herd>
  <longdescription>
        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 and 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 and Zhang 1990). Finally, we provide an algorithm to design
        sequences with a predefined structure (inverse folding).
</longdescription>
</pkgmetadata>
1	<?xml version="1.0" encoding="UTF-8"?>
2	<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
3	<pkgmetadata>
4	<herd>sci-biology</herd>
5	<longdescription>
6	The Vienna RNA Package consists of a C code library and several
7	stand-alone programs for the prediction and comparison of RNA secondary
8	structures. RNA secondary structure prediction through energy
9	minimization is the most used function in the package. We provide three
10	kinds of dynamic programming algorithms for structure prediction: the
11	minimum free energy algorithm of (Zuker and Stiegler 1981) which yields a
12	single optimal structure, the partition function algorithm of
13	(McCaskill 1990) which calculates base pair probabilities in the
14	thermodynamic ensemble, and the suboptimal folding algorithm of
15	(Wuchty et.al 1999) which generates all suboptimal structures within a
16	given energy range of the optimal energy. For secondary structure
17	comparison, the package contains several measures of distance
18	(dissimilarities) using either string alignment or tree-editing
19	(Shapiro and Zhang 1990). Finally, we provide an algorithm to design
20	sequences with a predefined structure (inverse folding).
21	</longdescription>
22	</pkgmetadata>