Multidimensional Penalized Splines for (Excess) Hazard Models, Relative Mortality Ratio Models and Marginal Intensity Models


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Documentation for package ‘survPen’ version 2.0.1

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%cross% Matrix cross-multiplication between two matrices
%mult% Matrix multiplication between two matrices
%vec% Matrix multiplication between a matrix and a vector
colSums2 colSums of a matrix
constraint Sum-to-zero constraint
cor.var Implementation of the corrected variance Vc
crs Bases for cubic regression splines (equivalent to "cr" in 'mgcv')
crs.FP Penalty matrix constructor for cubic regression splines
CumulHazard Cumulative hazard (integral of hazard) only
datCancer Patients diagnosed with cervical cancer
DerivCumulHazard Cumulative hazard (integral of hazard) and its first and second derivatives wrt regression parameters beta
deriv_R Derivative of a Choleski factor
design.matrix Design matrix for the model needed in Gauss-Legendre quadrature
expected.table French women mortality table
grad_rho Gradient vector of LCV and LAML wrt rho (log smoothing parameters)
grad_rho_mult Gradient vector of LCV and LAML wrt rho (log smoothing parameters). Version for multiplicative decomposition : relative mortality ratio model
HazGL Gauss-Legendre evaluations
HeartFailure Patients with heart failure at risk of recurrent hospitalization events
Hess_rho Hessian matrix of LCV and LAML wrt rho (log smoothing parameters)
Hess_rho_mult Hessian matrix of LCV and LAML wrt rho (log smoothing parameters). Version for multiplicative decomposition : relative mortality ratio model
instr Position of the nth occurrence of a string in another one
inv.repam Reverses the initial reparameterization for stable evaluation of the log determinant of the penalty matrix
list.wicss List of ICSS standards for age-standardization of cancer (net) survival
model.cons Design and penalty matrices for the model
NR.beta Inner Newton-Raphson algorithm for regression parameters estimation
NR.rho Outer Newton-Raphson algorithm for smoothing parameters estimation via LCV or LAML optimization
predict.survPen Hazard and Survival prediction from fitted 'survPen' model
predSNS Prediction of grouped indicators : population (net) survival (PNS) and age-standardized (net) survival (SNS)
print.summary.survPen print summary for a 'survPen' fit
pwcst Defining piecewise constant (excess) hazard in survPen formulae
rd Defining random effects in survPen formulae
repam Applies initial reparameterization for stable evaluation of the log determinant of the penalty matrix
robust.var Implementation of the robust variance Vr
smf Defining smooths in survPen formulae
smooth.cons Design and penalty matrices of penalized splines in a smooth.spec object
smooth.cons.integral Design matrix of penalized splines in a smooth.spec object for Gauss-Legendre quadrature
smooth.spec Covariates specified as penalized splines
splitmult Split original dataset at specified times to fit a multiplicative model
summary.survPen Summary for a 'survPen' fit
survPen (Excess) hazard model with (multidimensional) penalized splines and integrated smoothness estimation
survPen.fit (Excess) hazard model with multidimensional penalized splines for given smoothing parameters
survPenObject Fitted survPen object
tensor Defining smooths in survPen formulae
tensor.in tensor model matrix for two marginal bases
tensor.prod.S Tensor product for penalty matrices
tensor.prod.X tensor model matrix
tint Defining smooths in survPen formulae