[Biococoa-dev] BCPairwiseAlignment
Alexander Griekspoor
a.griekspoor at nki.nl
Sat Mar 12 10:32:14 EST 2005
Why the need for such categories to add sequence algorithms and not
just in the BCSequenceAlignment class? The framework is completely
opensource, so people can just modify the framework right (it would
also stimulate them to add their additions to the public framework)...
I like the idea of class methods to instantiate different kinds of
alignments though!
Cheers,
Alex
On 12-mrt-05, at 13:25, Philipp Seibel wrote:
>
>>> Not sure if I like the name BCAlignmentAlgorithm, it screams for
>>> typo's ;) We could have the result named BCAlignmentResult or
>>> BCSequenceAlignment.
>>>
>> I agree with you. I like the BCSequenceAlignment version.
>
> So there is my new idea:
>
> You can see a alignment-algorithms as convenient constructors of a
> BCAlignment (or BCSequenceAlignment), so we could have categories for
> BCAlignment like
>
> @interface BCAlignment ( PairwiseAlignment )
>
> + (BCAlignment *)needlemanWunschAlignment......
> + (BCAlignment *)smithWatermanAlignment....
>
> @end
>
>
> @interface BCAlignment ( MultipleAlignment )
>
> + (BCAlignment *)clustalWAlignment.....
>
> @end
>
> so everybody who wants to add alignment algorithms do that in
> additions (categories).
>
> Just another idea ....
>
>
> Phil
>
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>
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** Alexander Griekspoor **
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The Netherlands Cancer Institute
Department of Tumorbiology (H4)
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Tel: + 31 20 - 512 2023
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E-mail: a.griekspoor at nki.nl
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