Searched refs:codonf (Results 1 – 4 of 4) sorted by relevance
| /dports/biology/paml/paml4.9j/src/ |
| H A D | codeml.c | 1091 if (com.codonf == F1x4 || com.codonf == F1x4MG || com.codonf >= FMutSel0) { in DetailOutput()
1865 && (com.codonf == Fcodon || com.codonf == FMutSel0 || com.codonf == FMutSel)) { in SetxBound()
2370 if (com.codonf == F1x4MG || com.codonf == F3x4MG) in SetPGene()
2650 if (com.codonf == F3x4 || com.codonf == F3x4MG) in GetCodonFreqs()
3227 if (com.codonf >= F1x4MG && com.codonf <= FMutSel && com.codonf != Fcodon) in eigenQcodon()
3788 else if (com.codonf == Fcodon || com.codonf == FMutSel0 || com.codonf == FMutSel) { in InitializeCodon()
3805 if (com.codonf >= F1x4 && com.codonf <= FMutSel) in InitializeCodon()
3808 …if (com.codonf == FMutSel0 || com.codonf == FMutSel || com.codonf == F1x4 || com.codonf == F1x4MG)… in InitializeCodon()
3824 if (com.codonf >= F1x4 && com.codonf <= FMutSel) in InitializeCodon()
4110 if (com.codonf != Fcodon && com.codonf != FMutSel) { in GetCodonFreqs2()
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| H A D | yn00.c | 45 int ns,ls,npatt,codonf,icode,ncode,getSE,*pose,verbose, seqtype, readpattern; member
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| H A D | treesub.c | 5103 if (com.codonf >= F1x4MG) com.pf3x4 = com.f3x4[ig]; in MultipleGenes()
7379 pkappa = (com.hkyREV || com.codonf == FMutSel ? x + com.ntime + com.nrgene : &com.kappa); in GetPMatBranch()
7510 pkappa = (com.hkyREV || com.codonf == FMutSel ? xcom + com.nrgene : &com.kappa); in SetPSiteClass()
7973 pkappa = (com.hkyREV || com.codonf == FMutSel ? xcom + com.nrgene : &com.kappa); in lfunt()
8052 pkappa = (com.hkyREV || com.codonf == FMutSel ? xcom + com.nrgene : &com.kappa); in lfuntdd()
9111 if ((com.seqtype == 1 && com.codonf) || (com.seqtype == 2 && com.model == 3)) in UseLocus()
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| H A D | mcmctree.c | 99 int method, icode, codonf, aaDist, NSsites; member
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