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37 lines
1.1 KiB
C++
37 lines
1.1 KiB
C++
// $Id: likelihoodComputation2USSRV.h 962 2006-11-07 15:13:34Z privmane $
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#ifndef ___LIKELIHOOD_COMPUTATION_2_USSRV
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#define ___LIKELIHOOD_COMPUTATION_2_USSRV
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#include "definitions.h"
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#include "computePijComponent.h"
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#include "sequenceContainer.h"
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#include "suffStatComponent.h"
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#include "ussrvModel.h"
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#include "tree.h"
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#include "computeUpAlg.h"
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#include "likelihoodComputation.h"
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#include <cmath>
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#include <cassert>
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namespace likelihoodComputation2USSRV {
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MDOUBLE getTreeLikelihoodAllPosAlphTheSame(const tree& et,
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const sequenceContainer& sc,const sequenceContainer& baseSc,
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const ussrvModel& model,const Vdouble * const weights=0);
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MDOUBLE getTreeLikelihoodFromUp2(const tree& et,
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const sequenceContainer& sc,
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const sequenceContainer& baseSc,
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const ussrvModel & model,
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const suffStatGlobalGam& cupBase,
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const suffStatGlobalHom& cupSSRV,
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VdoubleRep& posLike, // fill this vector with each position likelihood but without the weights.
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const Vdouble * weights=0);
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};
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#endif // ___LIKELIHOOD_COMPUTATION_2_USSRV
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