[Owl-devel] Aminoacid reduced alphabets

[Dan Bolser]

http://kaggle.com/ ?

On 2 June 2010 16:06, Henning Stehr <stehr at molgen.mpg.de> wrote:
> Nice! We should enter our AminoAcid class into a competition for
> "coolest Java enum" :)
>
> On Wed, Jun 2, 2010 at 4:37 PM, Jose M. Duarte <jose.m.duarte at gmail.com> wrote:
>> FYI
>>
>> I've added to the AminoAcid enum fields to store aminoacid reduced alphabet
>> classes and added the data for alphabets of 15, 10, 8, 6, 4 and 2 groups.
>> These are taken from Murphy et al. 2000 Protein Engineering and the 6-groups
>> one from Mirny and Shakhnovich 1999 JMB.
>>
>> I am using those to calculate sequence entropies based on different
>> alphabets (see MultipleSequenceAlignment.getColumnEntropy) but somebody
>> might find them useful for something else.
>>
>> Jose
>>
>>
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>>
>
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