This old thread on crf-users mailing list might be helpful to you.

On 4/28/07, crf-users-request@lists.sourceforge.net < crf-users-request@lists.sourceforge.net> wrote:
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Today's Topics:

  1. Query regarding CRF (Gautam Lihala)


Message: 1
Date: Fri, 27 Apr 2007 17:14:37 +0530
From: "Gautam Lihala" < gautamlihala@gmail.com>
Subject: [Crf-users] Query regarding CRF
To: crf-users@lists.sourceforge.net
       < 50a050410704270444w2fc1acc7u1e8600e6aca1a1c9@mail.gmail.com>
Content-Type: text/plain; charset="iso-8859-1"

Please accept my due regards.

I am a student, in the dept. of IT & a member of the research group in the
field of BioInformatics at NIT-Bhopal. I am doing my Bacherlor's
from NIT Bhopal and have published a paper in NETTAB'07 (ITALY) in System

Currently I am working on Protein Tertiary Structure prediction problem
CRF. Its nice that there exist a CRF package, which will
save lot of time & effort of research community, speeding-up the
research process. We have been able to successfully  install the package
& were also successful in running the test data set provided with the

We understand that it's a barebone package implementation of CRF. In the
package.html file of the CRF package there is a  mention that users of
package has to implement FeatureGenerator & DataIter classes according
to the application under consideration. This we understand. Now there is
also a mention of

"The best way to learn how to use this code is to examples in the
package @see iitb.usingCRFs.Segment for Sequence annotations and @see
iitb.usingCRFs.MaxentClassifier for a basic maximum entropy based
classifier. @author Sunita Sarawagi, IIT Bombay ( sunita@iitb.ac.in
<mailto:sunita@iitb.ac.in>) "

We are not clear what to infer from the above statement?

Can anybody elucidate on the meaning of the above statement?
Is anybody working on application of CRF to Bioinformatics related problem.

Eagerly waiting for the response,
Thanking you

Gautam Lihala
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End of Crf-users Digest, Vol 8, Issue 2