[BiO BB] SWDA
mgollery at unr.edu
Fri Sep 17 12:59:06 EDT 2004
I looked for this a couple of years ago whilst working on it for the
DeCypher. There was nothing at the time, but this might have changed. I
certainly like the double-affine scoring, so if there is no publicly
available implementation, somebody ought to get to work on it!
Diego Martinez wrote:
> Hello all,
> I am searching for an implementation of the Smith-Waterman
> algorythm, but with the double-affine gapping that is
> publicly available. I know FASTA has a full SW implementation,
> but it does not offer the second gap penalty score option.
> I also am aware that Paracel and DeCypher both have these,
> but they are far from free. Any help would be
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Center For Bioinformatics
University of Nevada at Reno
Dept. of Biochemistry / MS330
Marty's Law- the number of Bioinformatics acronyms will double every 18
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