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

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Documentation for package ‘survPen’ version 2.0.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

%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