a new program in bppSuite, called bppmixedlikelihoods, is available. It computes site per site log-likelihoods of submodels inside a mixed model. If submodels are defined on the basis of a parameter following a discrete distribution, the site per site average a posteriori value of this parameter is also computed.
Thanks a lot for this! A question to be sure I am understanding correctly:
in bppML, there is currently an option that output the logL, the rate with
maximum probability and the average posterior rate for each site for RAS
models. Is the new program kind of a generalization of this for any mixed
model?
All the best,
Julien.
On Fri, Nov 16, 2012 at 12:08 AM, Laurent Guéguen
<lau.gueg...@laposte.net>wrote:
> a new program in bppSuite, called bppmixedlikelihoods, is available. It
> computes site per site
> log-likelihoods of submodels inside a mixed model. If submodels are
> defined on the basis of a
> parameter following a discrete distribution, the site per site average a
> posteriori value of this
> parameter is also computed.
> Cheers,
> L
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-- Julien Y. Dutheil, Ph-D
0 (+49) 6421 178 530
§ Max Planck Institute for Terrestrial Microbiology
Department of Organismic Interactions
Marburg -- GERMANY
§ Intitute of Evolutionary Sciences - Montpellier
University of Montpellier 2 -- FRANCE
up to now, it is complementary, since it returns the average posterior value of a parameter that is modeled by a distribution,
but this summed on all the rates. But in a very next future when all the mixtures (rates and parameters) will be considered in a same way, it is a generalization indeed.
On Friday, November 16, 2012 6:29:01 AM UTC+1, Julien Yann Dutheil wrote:
> Hi Laurent,
> Thanks a lot for this! A question to be sure I am understanding correctly: > in bppML, there is currently an option that output the logL, the rate with > maximum probability and the average posterior rate for each site for RAS > models. Is the new program kind of a generalization of this for any mixed > model?
> All the best,
> Julien.
> On Fri, Nov 16, 2012 at 12:08 AM, Laurent Guéguen <lau.g...@laposte.net<javascript:>
> > wrote:
>> Hi folks,
>> a new program in bppSuite, called bppmixedlikelihoods, is available. It >> computes site per site >> log-likelihoods of submodels inside a mixed model. If submodels are >> defined on the basis of a >> parameter following a discrete distribution, the site per site average a >> posteriori value of this
>> parameter is also computed.
>> Cheers,
>> L
>> -- >> You received this message because you are subscribed to the Google Groups >> "Bio++ Usage Help Forum" group.
>> To post to this group, send email to biopp-he...@googlegroups.com<javascript:>
>> .
>> To unsubscribe from this group, send email to >> biopp-help-for...@googlegroups.com <javascript:>.
>> To view this discussion on the web visit >> https://groups.google.com/d/msg/biopp-help-forum/-/DCU4CgW2DqIJ.
>> For more options, visit https://groups.google.com/groups/opt_out.
