Searched refs:stateFreq (Results 1 – 6 of 6) sorted by relevance
| /dports/biology/mrbayes/MrBayes-3.2.7/src/ |
| H A D | likelihood.c | 5663 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in Likelihood_Adgamma()
5744 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in Likelihood_Gen()
5951 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in Likelihood_Gen_SSE()
6115 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in Likelihood_Gen_GibbsGamma()
6257 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in Likelihood_NUC4()
6377 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in Likelihood_NUC4_GibbsGamma()
10011 bs = GetParamSubVals(m->stateFreq, chain, state[chain]); in TiProbs_Res()
10144 if (m->stateFreq->paramId == SYMPI_EQUAL) in TiProbs_Std()
10459 for (c=0; c<m->stateFreq->nSympi; c++) in TiProbs_Std()
10461 n = m->stateFreq->sympinStates[c]; in TiProbs_Std()
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| H A D | mbbeagle.c | 1155 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in TreeLikelihood_Beagle()
2672 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in TreeLikelihood_BeagleMultiPartition()
2936 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in TreeLikelihood_BeagleMultiPartition()
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| H A D | bayes.h | 1235 Param *stateFreq; /* ptr to statFreq used in model */ member
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| H A D | mcmc.c | 5340 bsVals = GetParamSubVals (m->stateFreq, chain, state[chain]); in GibbsSampleGamma()
5864 if (m->stateFreq->paramId == SYMPI_EQUAL) in InitChainCondLikes()
10152 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in PosSelProbs()
10209 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in PosSelProbs_SSE()
10311 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in SiteOmegas()
10367 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in SiteOmegas_SSE()
10661 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in PrintAncStates_Bin()
10763 bsVals = GetParamSubVals (m->stateFreq, chain, state[chain]); in PrintAncStates_Gen()
10936 bsVals = GetParamSubVals (m->stateFreq, chain, state[chain]); in PrintAncStates_NUC4()
12271 bs = GetParamSubVals (m->stateFreq, chain, state[chain]); in PrintSiteRates_Gen()
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| H A D | model.c | 11376 bs = GetParamSubVals (m->stateFreq, chn, 0); in FillNormalParams()
15684 if (m->stateFreq->nValues == 0 || m->nStates[c] == 2) in ProcessStdChars()
17771 m->stateFreq = NULL; in SetModelInfo()
18666 modelSettings[i].stateFreq = p; in SetModelParams()
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| H A D | proposal.c | 108 bs = GetParamSubVals (modelSettings[param->relParts[0]].stateFreq, chain, state[chain]); in Move_Aamodel()
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