Re: [Seqan-dev] PISA toolbox code
Am 27.01.12 09:10, schrieb John Reid:
Hi,
I've recently become interested in variable order Markov chains. I
plan to develop some algorithms that extend and use these chains. I've
been using the SeqAn library for a while now and I wonder if there are
any plans to release the source code for the PISA toolbox.
Regards,
John Reid.
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Hi John,
I am the developer and maintainer of the code. Although I havent been
working on the code for some time I know that it compiles with the most
recent version of the library and I always had the plan to release the
source code and make it an integral part of the library. Similarly I
wanted to release the source code for the applications that belong to
the PISA toolbox.
A this is a huge code base this integration will take a considerable
amount of time and it is hard for me to say how long exactly it will
take but I am aiming to integrate it into the library in the next months.
However, I am more than happy to send you the code for everything by
mail if you contact me offline of this list. Furthermore I am also happy
to answer any questions regarding possible extensions or which features
are contained in the implementations already.
A good overview of the principal functionality can be seen from the
documentations of the applications in the PISA toolbox, which provide
basic learning, save/load, and likelihood estimation functions for
different variable order markov chain estimators.
Regards,
Marcel
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Marcel H. Schulz
Ray and Stephanie Lane Center email: maschulz@cs.cmu.edu
for Computational Biology
Carnegie Mellon University
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http://www.cs.cmu.edu/~maschulz/
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