Bug#200591: ITP: wise2 -- [Biology] DNA sequence similarity search tools, GeneWise, PromotorWise

[Steffen Moeller <moeller@pzr.uni-rostock.de>]

Package: wnpp
Version: unavailable; reported 2003-07-09
Severity: wishlist


* Package name    : wise2
  Version         : 2.1.20
  Upstream Author : Ewan Birney <birney@ebi.ac.uk>
* 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.