as.parframe: Coerce object to a parameter frame

In dkaschek/dMod: Dynamic Modeling and Parameter Estimation in ODE Models

Coerce object to a parameter frame

Description

Coerce object to a parameter frame

Usage

## S3 method for class 'parlist'
as.parframe(x, sort.by = "value", ...)

as.parframe(x, ...)

Arguments

x	object to be coerced
sort.by	character indicating by which colum the returned parameter frame should be sorted. Defaults to "value".
...	other arguments

Value

object of class parframe.

Examples

## Generate a prediction function
regfn <- c(y = "sin(a*time)")

g <- Y(regfn, parameters = "a")
x <- Xt(condition = "C1")

## Generate data
data <- datalist(
  C1 = data.frame(
    name = "y",
    time = 1:5,
    value = sin(1:5) + rnorm(5, 0, .1),
    sigma = .1
  )
)

## Initialize parameters and time 
pars <- c(a = 1)
times <- seq(0, 5, .1)

plot((g*x)(times, pars), data)

## Do many fits from random positions and store them into parlist
out <- as.parlist(lapply(1:50, function(i) {
  trust(normL2(data, g*x), pars + rnorm(length(pars), 0, 1), rinit = 1, rmax = 10)
}))

summary(out)

## Reduce parlist to parframe
parframe <- as.parframe(out)
plotValues(parframe)

## Reduce parframe to best fit
bestfit <- as.parvec(parframe)
plot((g*x)(times, bestfit), data)

dkaschek/dMod documentation built on July 27, 2023, 11:45 p.m.