[Biojava-l] BioJava 2 status

[Richard Holland]

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@see org.biojava.bio.align.SubstitutionMatrix

Basically it doesn't include any matrices, but the above class will load
matrix definition files the user has downloaded from the NCBI FTP site,
so you can obtain standard matrices that way.


Matthew Pocock wrote:
> Somebody asked me:
> 
>> I was wondering whether BioJava provides standard scoring matrices
>> (e.g. BLOSUM62, etc.) as "constants" anywhere for doing alignments. I
>> couldn't seem to find this anywhere in the code but, admittedly, have
>> not looked very closely yet.
> 
> And rather embarasingly, I don't know the answer. Does someone here?
> 
> Matthew
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> 
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