Nonparametric model

In serosv: Model Infectious Disease Parameters from Serosurveys

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>"
)

library(serosv)

Local estimation by polynomial

Refer to Chapter 7.1

Proposed model

Within the local polynomial framework, the linear predictor $\eta(a)$ is approximated locally at one particular value $a_0$ for age by a line (local linear) or a parabola (local quadratic).

The estimator for the $k$-th derivative of $\eta(a_0)$, for $k = 0,1,…,p$ (degree of local polynomial) is as followed:

$$ \hat{\eta}^{(k)}(a_0) = k!\hat{\beta}_k(a_0) $$

The estimator for the prevalence at age $a_0$ is then given by

$$ \hat{\pi}(a_0) = g^{-1}{ \hat{\beta}_0(a_0) } $$

• Where $g$ is the link function

The estimator for the force of infection at age $a_0$ by assuming $p \ge 1$ is as followed

$$ \hat{\lambda}(a_0) = \hat{\beta}_1(a_0) \delta { \hat{\beta}_0 (a_0) } $$

• Where $\delta { \hat{\beta}_0(a_0) } = \frac{dg^{-1} { \hat{\beta}_0(a_0) } } {d\hat{\beta}_0(a_0)}$

Fitting data

mump <- mumps_uk_1986_1987
age <- mump$age
pos <- mump$pos
tot <- mump$tot
y <- pos/tot

Use plot_gcv() to show GCV curves for the nearest neighbor method (left) and constant bandwidth (right).

plot_gcv(
   age, pos, tot,
   nn_seq = seq(0.2, 0.8, by=0.1),
   h_seq = seq(5, 25, by=1)
 )

Use lp_model() to fit a local estimation by polynomials.

lp <- lp_model(age, pos = pos, tot = tot, kern="tcub", nn=0.7, deg=2)
plot(lp)

serosv documentation built on Oct. 18, 2024, 5:07 p.m.