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Correcting for Numerical Underflow (Read 1980 times)
Miguel Lacerda
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Correcting for Numerical Underflow
Feb 17th, 2009 at 6:45am  
Dear Sergei,

I am trying to compute site likelihoods for a given model using LFCompute and am getting log-likelihoods of -1e06 for many of the sites. Is there a way to correct for numerical underflow in HyPhy?

Thanks,
Miguel
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Sergei
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Re: Correcting for Numerical Underflow
Reply #1 - Feb 17th, 2009 at 8:09am  
Dear Miguel,

Does this happen in the new build as well?
The version from SVN should have a pretty robust underflow correction algorithm.

Cheers,
Sergei
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Miguel Lacerda
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Re: Correcting for Numerical Underflow
Reply #2 - Feb 17th, 2009 at 8:36am  
Sergei,

I am using the SVN build version 298 - is that the version you are referring to?

Miguel
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Sergei
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Re: Correcting for Numerical Underflow
Reply #3 - Feb 17th, 2009 at 9:23am  
Hey Miguel,

I think the build version is up to 410 or something like that now.
At any rate, 298 should have dealt with the underflow. Can you send me an example (data/bf) where the overflow happens?

Cheers,
Sergei
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