Hello,
I have played with the dynamic programming algorithm for obtaining
sequence alignments -> beta-beta-beta code is at
http://www.cs.usask.ca/undergrads/ogd116/seqalign/
I toyed with the idea of parallelizing the whole dynamic programming
algorithm - further more, writing as bunch of parallelized agents sitting
around on a local network and crunching on the same sequence database - I
believe (hope) this would speed up things greatly.
I used the dynamic programming algorithm explained
at: http://www.cs.washington.edu/education/courses/527/00wi/lectures/lect04.pdf
Best regards,
Ognen Duzlevski
On 7 Jul 2000, Andrew Dalke wrote:
: Alex wrote:
: >Hi. I made a python module that does simple sequence alignments. If
: >there is enough interest, I may make it a little more elaborate. You
: >can get it from
: >
: >http://puffin.lcs.mit.edu:8080/align.tgz:: By the way, you may be interested in biopython.org, which is developing
: a set of libraries and tools for bioinformatics and related fields. You
: may also be interested in the Bioinformatics Open-Source Conference
: <ismb2000.sdsc.edu/bosc2000> which really should include your
: disclaimer concerning Giant Super-Intelligent Man-Eating Lizards.
:: Andrew
:dalke at acm.org
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