| <?xml version="1.0" encoding="UTF-8"?> |
| <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
| <pkgmetadata> |
| <maintainer type="project"> |
| <email>sci-biology@gentoo.org</email> |
| <name>Gentoo Biology Project</name> |
| </maintainer> |
| <longdescription> |
| Amino acid indices and similarity matrices maintained at Kyoto |
| University. An amino acid index is a set of 20 numerical values |
| representing any of the different physicochemical and biological |
| properties of amino acids. The AAindex1 section of the Amino Acid |
| Index Database is a collection of published indices together with the |
| result of cluster analysis using the correlation coefficient as the |
| distance between two indices. This section currently contains 494 |
| indices. Another important feature of amino acids that can be |
| represented numerically is the similarity between amino acids. Thus, a |
| similarity matrix, also called a mutation matrix, is a set of 210 |
| numerical values, 20 diagonal and 20x19/2 off-diagonal elements, used |
| for sequence alignments and similarity searches. The AAindex2 section |
| of the Amino Acid Index Database is a collection of published amino |
| acid mutation matrices together with the result of cluster analysis. |
| This section currently contains 83 matrices. |
| </longdescription> |
| </pkgmetadata> |