Score Matching Estimation by Automatic Differentiation


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Documentation for package ‘scorematchingad’ version 0.1.1

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scorematchingad-package scorematchingad: Score Matching Estimation by Automatic Differentiation
ADFun A Class for CppAD Tapes
Bingham Score Matching Estimators for the Bingham Distribution
cppad_closed Score Matching Estimator for Quadratic-Form Score Matching Discrepancies
cppad_search Iterative Score Matching Estimator Using Conjugate-Gradient Descent
dppi Improper Log-Density of the PPI Model
evaltape Evaluate a CppAD Tape Many Times
evaltape_wsum Evaluate a CppAD Tape Many Times
FB Estimate the Fisher-Bingham Distribution
microbiome 16s Microbiome Data for Soil-Transmitted Helminths
ppi Estimation of Polynomially-Tilted Pairwise Interaction (PPI) Model
ppi_cW Quickly Generate a Vector of Windham Exponents for the PPI Model
ppi_cW_auto Quickly Generate a Vector of Windham Exponents for the PPI Model
ppi_fromAstar PPI Parameter Tools
ppi_mmmm A PPI Score-Matching Marginal Moment Matching Estimator (dimension=3 only)
ppi_parammats PPI Parameter Tools
ppi_paramvec PPI Parameter Tools
ppi_param_tools PPI Parameter Tools
ppi_robust Robustly Estimate Parameters of the PPI Distribution
ppi_robust_alrgengamma Robustly Estimate Parameters of the PPI Distribution
ppi_smvalues Estimation of Polynomially-Tilted Pairwise Interaction (PPI) Model
ppi_toAstar PPI Parameter Tools
print,Rcpp_ADFun Print or show a summary of an Rcpp_ADFun
print-method Print or show a summary of an Rcpp_ADFun
quadratictape_parts Evaluate the Hessian and Gradient Offset of a Taped Quadratic Function
Rcpp_ADFun A Class for CppAD Tapes
Rcpp_ADFun-class A Class for CppAD Tapes
rppi Simulate from a PPI Model
rppi_egmodel Simulate from a PPI Model
rsymmetricmatrix Quickly Generate a Symmetric Matrix for Testing and Examples
scorematchingad scorematchingad: Score Matching Estimation by Automatic Differentiation
scorematchingtheory Introduction to Score Matching
show-method Print or show a summary of an Rcpp_ADFun
smvalues Compute Score Matching Discrepancy Value, Gradient, and Hessian
smvalues_wsum Compute Score Matching Discrepancy Value, Gradient, and Hessian
tape_gradoffset Tape the Gradient Offset of a Quadratic CppAD Tape
tape_Hessian Tape the Hessian of a CppAD Tape
tape_Jacobian Tape the Jacobian of CppAD Tape
tape_logJacdet Tape the log of Jacobian determinant of a CppAD Tape
tape_smd Build CppAD Tapes for Score Matching
tape_swap Switch Dynamic and Independent Values of a Tape
tape_uld Generate a tape of a custom unnormalised log-density
tape_uld_inbuilt Generate a tape of a custom unnormalised log-density
testquadratic Test Whether a CppAD Tape is a Quadratic Function
vMF Score Matching Estimator for the von-Mises Fisher Distribution
vMF_robust Robust Fitting of von Mises Fisher
Windham Windham Robustification of Point Estimators for Exponential Family Distributions
Windham_populationinverse Inverse Transform for the Population Parameters Under Windham Weights
Windham_populationinverse_alternative Inverse Transform for the Population Parameters Under Windham Weights