FabioLugar/PCMkappa
Fast Likelihood Calculation for kappa Phylogenetic Comparative Models

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Functions
1421
Source code
14
Man pages
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FabioLugar/PCMkappa: Fast Likelihood Calculation for kappa Phylogenetic Comparative Models
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API for FabioLugar/PCMkappa
Fast Likelihood Calculation for kappa Phylogenetic Comparative Models

Global functions
GetSigma_x Source code
PCMApplyTransformation.BMkappa Source code
PCMApplyTransformation.OUkappa Source code
PCMCond.EB Source code
PCMCondVOU_EB Source code
PCMDescribe.BMkappa Source code
PCMDescribe.EB Source code
PCMDescribe.OUKappa Source code
PCMDescribeParameters.BMkappa Source code
PCMDescribeParameters.EB Source code
PCMDescribeParameters.OUkappa Source code
PCMInfo.EB Source code
PCMListDefaultParameterizations.BMkappa Source code
PCMListDefaultParameterizations.EB Source code
PCMListDefaultParameterizations.OUkappa Source code
PCMListParameterizations.BMkappa Source code
PCMListParameterizations.EB Source code
PCMListParameterizations.OUkappa Source code
PCMPExpxMeanExp Source code
PCMPLambdaP_1 Source code
PCMPairSums Source code
PCMParentClasses.BM_drift__Global_X0__h_drift__Diagonal_WithNonN Source code
PCMParentClasses.BM_drift__Global_X0__h_drift__ScalarDiagonal_Wi Source code
PCMParentClasses.BM_drift__Global_X0__h_drift__UpperTriangularWi Source code
PCMParentClasses.BM_drift__Omitted_X0__h_drift__Diagonal_WithNon Source code
PCMParentClasses.BM_drift__Omitted_X0__h_drift__ScalarDiagonal_W Source code
PCMParentClasses.BM_drift__Omitted_X0__h_drift__UpperTriangularW Source code
PCMParentClasses.BMkappa Source code
PCMParentClasses.BMkappa__AllEqual_Global_X0__NonNegative_Fixed_ Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__AllEqual_Global_X0__NonNegative_Global Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__AllEqual_Global_X0__NonNegative_Omitte Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__AllEqual_Global_X0__NonNegative_kappa_ Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Fixed_Global_X0__NonNegative_Fixed_Glo Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Fixed_Global_X0__NonNegative_Global_ka Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Fixed_Global_X0__NonNegative_Omitted_k Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Fixed_Global_X0__NonNegative_kappa__Di Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Fixed_Global_X0__NonNegative_kappa__Sc Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Fixed_Global_X0__NonNegative_kappa__Up Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Global_X0__NonNegative_Fixed_Global_ka Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Global_X0__NonNegative_Global_kappa__D Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Global_X0__NonNegative_Global_kappa__S Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Global_X0__NonNegative_Global_kappa__U Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Global_X0__NonNegative_Omitted_kappa__ Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Global_X0__NonNegative_kappa__Diagonal Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Global_X0__NonNegative_kappa__ScalarDi Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Global_X0__NonNegative_kappa__UpperTri Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Omitted_X0__NonNegative_Fixed_Global_k Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Omitted_X0__NonNegative_Global_kappa__ Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Omitted_X0__NonNegative_Omitted_kappa_ Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Omitted_X0__NonNegative_kappa__Diagona Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Omitted_X0__NonNegative_kappa__ScalarD Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.BMkappa__Omitted_X0__NonNegative_kappa__UpperTr Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMParentClasses.EB Source code
PCMParentClasses.EB__Global_X0__rho__Diagonal_WithNonNegativeDia Source code
PCMParentClasses.EB__Global_X0__rho__ScalarDiagonal_WithNonNegat Source code
PCMParentClasses.EB__Global_X0__rho__UpperTriangularWithDiagonal Source code
PCMParentClasses.EB__Omitted_X0__rho__Diagonal_WithNonNegativeDi Source code
PCMParentClasses.EB__Omitted_X0__rho__ScalarDiagonal_WithNonNega Source code
PCMParentClasses.EB__Omitted_X0__rho__UpperTriangularWithDiagona Source code
PCMParentClasses.OUkappa Source code
PCMParentClasses.OUkappa__Global_X0__NonNegative_kappa__Diagonal Source code Source code
PCMParentClasses.OUkappa__Global_X0__NonNegative_kappa__Global_H Source code
PCMParentClasses.OUkappa__Global_X0__NonNegative_kappa__H__Theta Source code
PCMParentClasses.OUkappa__Global_X0__NonNegative_kappa__Schur_Di Source code Source code
PCMParentClasses.OUkappa__Global_X0__NonNegative_kappa__Schur_Sc Source code Source code
PCMParentClasses.OUkappa__Global_X0__NonNegative_kappa__Schur_Up Source code Source code
PCMParentClasses.OUkappa__Global_X0__NonNegative_kappa__Schur_Wi Source code Source code
PCMSpecify.BM_drift__Global_X0__h_drift__Diagonal_WithNonNegativ Source code
PCMSpecify.BM_drift__Global_X0__h_drift__ScalarDiagonal_WithNonN Source code
PCMSpecify.BM_drift__Global_X0__h_drift__UpperTriangularWithDiag Source code
PCMSpecify.BM_drift__Omitted_X0__h_drift__Diagonal_WithNonNegati Source code
PCMSpecify.BM_drift__Omitted_X0__h_drift__ScalarDiagonal_WithNon Source code
PCMSpecify.BM_drift__Omitted_X0__h_drift__UpperTriangularWithDia Source code
PCMSpecify.BMkappa Source code
PCMSpecify.BMkappa__AllEqual_Global_X0__NonNegative_Fixed_Global Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__AllEqual_Global_X0__NonNegative_Global_kappa Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__AllEqual_Global_X0__NonNegative_Omitted_kapp Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__AllEqual_Global_X0__NonNegative_kappa__Diago Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__AllEqual_Global_X0__NonNegative_kappa__Scala Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__AllEqual_Global_X0__NonNegative_kappa__Upper Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Fixed_Global_X0__NonNegative_Fixed_Global_ka Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Fixed_Global_X0__NonNegative_Global_kappa__D Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Fixed_Global_X0__NonNegative_Global_kappa__S Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Fixed_Global_X0__NonNegative_Global_kappa__U Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Fixed_Global_X0__NonNegative_Omitted_kappa__ Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Fixed_Global_X0__NonNegative_kappa__Diagonal Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Fixed_Global_X0__NonNegative_kappa__ScalarDi Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Fixed_Global_X0__NonNegative_kappa__UpperTri Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_Fixed_Global_kappa__D Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_Fixed_Global_kappa__S Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_Fixed_Global_kappa__U Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_Global_kappa__Diagona Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_Global_kappa__ScalarD Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_Global_kappa__UpperTr Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_Omitted_kappa__Diagon Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_Omitted_kappa__Scalar Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_Omitted_kappa__UpperT Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_kappa__Diagonal_WithN Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_kappa__ScalarDiagonal Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Global_X0__NonNegative_kappa__UpperTriangula Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_Fixed_Global_kappa__ Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_Global_kappa__Diagon Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_Global_kappa__Scalar Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_Global_kappa__UpperT Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_Omitted_kappa__Diago Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_Omitted_kappa__Scala Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_Omitted_kappa__Upper Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_kappa__Diagonal_With Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_kappa__ScalarDiagona Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.BMkappa__Omitted_X0__NonNegative_kappa__UpperTriangul Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code Source code
PCMSpecify.EB Source code
PCMSpecify.EB__Global_X0__rho__Diagonal_WithNonNegativeDiagonal_ Source code
PCMSpecify.EB__Global_X0__rho__ScalarDiagonal_WithNonNegativeDia Source code
PCMSpecify.EB__Global_X0__rho__UpperTriangularWithDiagonal_WithN Source code
PCMSpecify.EB__Omitted_X0__rho__Diagonal_WithNonNegativeDiagonal Source code
PCMSpecify.EB__Omitted_X0__rho__ScalarDiagonal_WithNonNegativeDi Source code
PCMSpecify.EB__Omitted_X0__rho__UpperTriangularWithDiagonal_With Source code
PCMSpecify.OUkappa Source code
PCMSpecify.OUkappa__Global_X0__NonNegative_kappa__Diagonal_WithN Source code Source code
PCMSpecify.OUkappa__Global_X0__NonNegative_kappa__Global_H__Thet Source code
PCMSpecify.OUkappa__Global_X0__NonNegative_kappa__H__Theta__Uppe Source code
PCMSpecify.OUkappa__Global_X0__NonNegative_kappa__Schur_Diagonal Source code Source code
PCMSpecify.OUkappa__Global_X0__NonNegative_kappa__Schur_ScalarDi Source code Source code
PCMSpecify.OUkappa__Global_X0__NonNegative_kappa__Schur_UpperTri Source code Source code
PCMSpecify.OUkappa__Global_X0__NonNegative_kappa__Schur_WithNonN Source code Source code
StationaryVariance Man page Source code
FabioLugar/PCMkappa documentation built on Nov. 29, 2022, 2:18 a.m.

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