nwalign algorithm

2011 12 27
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Dear all, I'm studying the nwalign.m file and found something I cannot solve by myself. In the line [CODE] affinegapmex(intseq2, intseq1, gapopen, gapextend, ScoringMatrix, algorithm); [/CODE]
The last argument 'algorithm' takes values 1 or 3.
However, the affinegap function does not use that argument as far as I can read, so my guess is this is something new in the affinegapmex function which is not readable since it is compiled.
My questions are, Are these values new to the affinegapmex function? From where I can read the content of the affinegapmex and simplegapmex functions?
Thanks in advance,
Diego

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Walter Roberson
Walter Roberson 2011-12-27
Any function whose name ends in 'mex' is fairly likely to be proprietary MathWorks source code.
Diego
Diego 2011-12-27
I'm ok with that... so can I borrow that code for a while?
I really want to study it.
Cheers,
Diego
Diego
Diego 2011-12-27
Well I gave up trying to understand from outside the way affinegapmex works.
Therefore let me rephrase my question:
From where can I download (or read) an older copy of nwalign that uses affinegap instead of affinegapmex?
Thanks,
Diego
Walter Roberson
Walter Roberson 2011-12-27
To get access to proprietary MathWorks source code, you need to be employed by MathWorks as an employee or intern.
Diego
Diego 2011-12-27
jajaja thank you very much Walter.
Hopefully some day I'll learn enough to be hired for this amazing company ;)
Best,
Diego

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Diego
2011-12-27

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