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Searched defs:dad_branch (Results 1 – 16 of 16) sorted by relevance

/dports/biology/iqtree/IQ-TREE-2.0.6/tree/
H A Dphylotreesse.cpp214 double PhyloTree::computeLikelihoodBranch(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computeLikelihoodBranch()
219 void PhyloTree::computeLikelihoodDerv(PhyloNeighbor *dad_branch, PhyloNode *dad, double *df, double… in computeLikelihoodDerv()
1539 void PhyloTree::computeMarginalAncestralState(PhyloNeighbor *dad_branch, PhyloNode *dad, in computeMarginalAncestralState()
1783 void PhyloTree::computeAncestralLikelihood(PhyloNeighbor *dad_branch, PhyloNode *dad, int *C) { in computeAncestralLikelihood()
1963 void PhyloTree::computeAncestralState(PhyloNeighbor *dad_branch, PhyloNode *dad, int *C, int *ances… in computeAncestralState()
H A Dphylokernel.h1465 void PhyloTree::computePartialParsimonyFastSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computePartialParsimonyFastSIMD()
1759 int PhyloTree::computeParsimonyBranchFastSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, int *branc… in computeParsimonyBranchFastSIMD()
1846 void PhyloTree::computePartialParsimonySankoffSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad){ in computePartialParsimonySankoffSIMD()
2022 int PhyloTree::computeParsimonyBranchSankoffSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, int *br… in computeParsimonyBranchSankoffSIMD()
H A Dphylotreepars.cpp32 void PhyloTree::computePartialParsimonyFast(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computePartialParsimonyFast()
241 int PhyloTree::computeParsimonyBranchFast(PhyloNeighbor *dad_branch, PhyloNode *dad, int *branch_su… in computeParsimonyBranchFast()
350 PhyloNeighbor *dad_branch = (PhyloNeighbor*)nodes1[0]->findNeighbor(nodes2[0]); in setParsimonyBranchLengths() local
638 void PhyloTree::computePartialParsimonySankoff(PhyloNeighbor *dad_branch, PhyloNode *dad){ in computePartialParsimonySankoff()
793 int PhyloTree::computeParsimonyBranchSankoff(PhyloNeighbor *dad_branch, PhyloNode *dad, int *branch… in computeParsimonyBranchSankoff()
H A Dphylokernelnonrev.cpp18 PhyloNeighbor *dad_branch = info.dad_branch; in computeNonrevPartialLikelihood() local
370 void PhyloTree::computeNonrevLikelihoodDerv(PhyloNeighbor *dad_branch, PhyloNode *dad, double *df, … in computeNonrevLikelihoodDerv()
599 double PhyloTree::computeNonrevLikelihoodBranch(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computeNonrevLikelihoodBranch()
H A Dphylokernelsitemodel.cpp14 void PhyloTree::computeSitemodelPartialLikelihoodEigen(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computeSitemodelPartialLikelihoodEigen()
443 void PhyloTree::computeSitemodelLikelihoodDervEigen(PhyloNeighbor *dad_branch, PhyloNode *dad, doub… in computeSitemodelLikelihoodDervEigen()
564 double PhyloTree::computeSitemodelLikelihoodBranchEigen(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computeSitemodelLikelihoodBranchEigen()
H A Dphylokernelsitemodel.h19 void PhyloTree::computeSitemodelPartialLikelihoodEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *da… in computeSitemodelPartialLikelihoodEigenSIMD()
375 void PhyloTree::computeSitemodelLikelihoodDervEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, … in computeSitemodelLikelihoodDervEigenSIMD()
539 double PhyloTree::computeSitemodelLikelihoodBranchEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *d… in computeSitemodelLikelihoodBranchEigenSIMD()
H A Dphylokernelmixrate.h23 void PhyloTree::computeMixratePartialLikelihoodEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad)… in computeMixratePartialLikelihoodEigenSIMD()
452 void PhyloTree::computeMixrateLikelihoodDervEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, do… in computeMixrateLikelihoodDervEigenSIMD()
700 double PhyloTree::computeMixrateLikelihoodBranchEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad… in computeMixrateLikelihoodBranchEigenSIMD()
H A Dphylokernelmixture.h21 void PhyloTree::computeMixturePartialLikelihoodEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad)… in computeMixturePartialLikelihoodEigenSIMD()
464 void PhyloTree::computeMixtureLikelihoodDervEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, do… in computeMixtureLikelihoodDervEigenSIMD()
730 double PhyloTree::computeMixtureLikelihoodBranchEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad… in computeMixtureLikelihoodBranchEigenSIMD()
H A Dphylokernelsafe.h81 void PhyloTree::computePartialLikelihoodEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computePartialLikelihoodEigenSIMD()
567 void PhyloTree::computeLikelihoodDervEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, double &d… in computeLikelihoodDervEigenSIMD()
859 double PhyloTree::computeLikelihoodBranchEigenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computeLikelihoodBranchEigenSIMD()
1460 void PhyloTree::computePartialParsimonyFastSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computePartialParsimonyFastSIMD()
1703 int PhyloTree::computeParsimonyBranchFastSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, int *branc… in computeParsimonyBranchFastSIMD()
H A Dphylokernelnonrev.h38 PhyloNeighbor *dad_branch = info.dad_branch; local
550 void PhyloTree::computeNonrevLikelihoodDervSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, double *…
1024 double PhyloTree::computeNonrevLikelihoodBranchSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad) {
H A Dphylotreemixlen.cpp322 void PhyloTreeMixlen::fixOneNegativeBranch(double branch_length, Neighbor *dad_branch, Node *dad) { in fixOneNegativeBranch()
745 PhyloNeighbor* dad_branch = current_it; in computeFuncDerv() local
H A Dphylokernelnew.h1148 PhyloNeighbor *dad_branch = (PhyloNeighbor*)dad->findNeighbor(node); in computeTraversalInfo() local
1257 PhyloNeighbor *dad_branch = info.dad_branch; in computePartialLikelihoodSIMD() local
1984 void PhyloTree::computeLikelihoodBufferSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, size_t ptn_l… in computeLikelihoodBufferSIMD()
2155 void PhyloTree::computeLikelihoodDervSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, double *df, do… in computeLikelihoodDervSIMD()
2597 double PhyloTree::computeLikelihoodBranchSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad) in computeLikelihoodBranchSIMD()
3335 void PhyloTree::computeLikelihoodDervMixlenSIMD(PhyloNeighbor *dad_branch, PhyloNode *dad, double &… in computeLikelihoodDervMixlenSIMD()
H A Dphylotree.cpp797 void PhyloTree::computePartialParsimony(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computePartialParsimony()
812 int PhyloTree::computeParsimonyBranch(PhyloNeighbor *dad_branch, PhyloNode *dad, int *branch_subst)… in computeParsimonyBranch()
2297 double PhyloTree::computeBayesianBranchLength(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computeBayesianBranchLength()
2410 double PhyloTree::computeCorrectedBayesianBranchLength(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computeCorrectedBayesianBranchLength()
2430 double PhyloTree::computeLikelihoodZeroBranch(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computeLikelihoodZeroBranch()
3299 void PhyloTree::fixOneNegativeBranch(double branch_length, Neighbor *dad_branch, Node *dad) { in fixOneNegativeBranch()
5391 void PhyloTree::reorientPartialLh(PhyloNeighbor* dad_branch, Node *dad) { in reorientPartialLh()
5411 bool PhyloTree::computeTraversalInfo(PhyloNeighbor *dad_branch, PhyloNode *dad, double* &buffer) { in computeTraversalInfo()
H A Dphylosupertreeplen.cpp331 double PhyloSuperTreePlen::computeLikelihoodBranch(PhyloNeighbor *dad_branch, PhyloNode *dad) { in computeLikelihoodBranch()
1855 void PhyloSuperTreePlen::reorientPartialLh(PhyloNeighbor* dad_branch, Node *dad) { in reorientPartialLh()
H A Dphylosupertree.cpp620 int PhyloSuperTree::computeParsimonyBranchObsolete(PhyloNeighbor *dad_branch, PhyloNode *dad, int *… in computeParsimonyBranchObsolete()
1352 void PhyloSuperTree::computeMarginalAncestralState(PhyloNeighbor *dad_branch, PhyloNode *dad, in computeMarginalAncestralState()
H A Dphylotree.h305 TraversalInfo(PhyloNeighbor *dad_branch, PhyloNode *dad) { in TraversalInfo()