Package: wnpp Version: unavailable; reported 2003-07-09 Severity: wishlist
* Package name : wise2 Version : 2.1.20 Upstream Author : Ewan Birney <[EMAIL PROTECTED]> * URL : http://www.ebi.ac.uk/Wise2/ * License : GPL Description : [Biology] Sequence similarity search tools, GeneWise, PromotorWise From the help page: Wise2 is package that is focused on comparing DNA sequences at the level of its conceptual translation, regardless of sequencing error and introns. This really is a rewrite of the old wisetools package, which was written about 3 years ago. The current version of wise2 in beta release (2.1.17) now has all the functionality the old version had. It can compare a single protein or a profile HMM to a genomic DNA sequence, and predict a gene structure. This is an algorithm, called genewise, which is one of the algorithms available in Wise2. There are other algorithms focused on EST data rather than genomic data, as well as some other algorithm curios. You can install it locally. The ftp site is linked here. You can install from source code or binaries for common unix platforms. The programs are licensed under the Gnu Public License. Added: Besides the above described applications, the package containts the Dynamite code generating language for dynamic programming. The BioPerl effort has an extension to wrap various applications that include these wise tools.
