[Biodevelopers] Proposal for creation of algorithm repository

[J.W. Bizzaro]

Mail problems.  This one didn't come through:

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From: "Dickinson, Bill" <dickinsw at CMG.MFLDCLIN.EDU>
To: <biodevelopers at bioinformatics.org>

What a great idea.  An open source repository.  And like open source =
development in the operating system and business applications area, this =
repository would draw on the expertise of folks all over the world =
interested in promoting tools for the life sciences.  Perhaps the person =
in charge of bioinformatics.org could provide a web link to and =
resources for such a repository.  Of course there would have to be some =
kind of monitoring function to ensure quality and conformance with =
standards that may need defining.  I am interested in becoming involved =
in this effort.  There must be others too.

Bill Dickinson=20
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Malay Kumar Basu wrote:
> Hi Group:
> 
> I have already posted this message to bionet-software. If this is a
> duplicate, I am profusely sorry.
> 
> Here what I have to say-
> 
> I don't have the necessary resources. But I think time has come that
> someone should create an algorithm repository for bioinformaics. Most of
> the standard algorithms has matured and several heuristics have been
> developed. The time is ripe to put all in one place. It will be a golden
> resource for everyone.
> 
> The repository should classify the algorithms with their use, e.g. 
> pattern matching, repeat finder, multiple alignment, pair-wise alignment,
> contig-assembly etc.
> 
> It should have state-of-the-art implementation of all algorithm, with all
> the nesessary heuristics. e.g. only implementation of naive Needleman
> Wunch is not enough; it should have all the memory effciency tricks for
> real-life implementaion of the algorithm.
> 
> The repository should give links to the original papers describing the
> algorithm.
> 
> The repository should avoid all pseudocode, and should describe all
> algorithm in standard language, like C/C++.
> 
> The repsiory should also describe which of algorithm is "fairest of them
> all".
> 
> I think a wiki like interface is best for such a venture. 
> 
> I am eager to hear from you guys-what do you think of such a project? Is
> anyone out there has broad enough shoulder.
> 
> Cheers,
> 
> Malay    
> 
> 
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-- 
J.W. Bizzaro                                jeff at bioinformatics.org
President, Bioinformatics.Org       http://bioinformatics.org/~jeff
"As we enjoy great advantages from the inventions of others, we
should be glad of an opportunity to serve others by any invention
of ours; and this we should do freely and generously."
                    -- Benjamin Franklin
--