Question

Dna Pairwise Alignment Using Matlab

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12.7 years ago

HMZ Gheidan ▴ 30

Hey everybody I'm trying to implement a Matlab code (though there is a built in function) to do simple alignment for two DNA sequences. if anyone have an Idea help needed.

Thanks a lot in advance

matlab dna pairwise alignment • 4.5k views

ADD COMMENT • link updated 12.7 years ago by Gmoney ▴ 220 • written 12.7 years ago by HMZ Gheidan ▴ 30

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Help in what manner?

ADD REPLY • link 12.7 years ago by Arun 2.4k

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as simple as I announced it is just 2 DNA sequences alignment, Im trying to start a student version for such a thing !

ADD REPLY • link 12.7 years ago by HMZ Gheidan ▴ 30

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also, gapped or ungapped

ADD REPLY • link 12.7 years ago by Ying W ★ 4.3k

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gapped ... as I saw it does not make a big change in the algorithm cause we will use the scoring tables !

ADD REPLY • link 12.7 years ago by HMZ Gheidan ▴ 30

score 1 · Answer 1 · 2012-05-02

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12.7 years ago

Gmoney ▴ 220

Have you considered looking at Smith-Waterman examples?

http://en.wikipedia.org/wiki/Smith%E2%80%93Waterman_algorithm

Here's an example in python: http://narnia.cs.ttu.edu/drupal/node/104

ADD COMMENT • link 12.7 years ago by Gmoney ▴ 220