path: root/man/nlme.mmkin.Rd

% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/nlme.mmkin.R
\name{nlme.mmkin}
\alias{nlme.mmkin}
\title{Create an nlme model for an mmkin row object}
\usage{
\method{nlme}{mmkin}(
  model,
  data = sys.frame(sys.parent()),
  fixed,
  random = fixed,
  groups,
  start,
  correlation = NULL,
  weights = NULL,
  subset,
  method = c("ML", "REML"),
  na.action = na.fail,
  naPattern,
  control = list(),
  verbose = FALSE
)
}
\arguments{
\item{model}{An \code{\link{mmkin}} row object.}

\item{data}{Ignored, data are taken from the mmkin model}

\item{fixed}{Ignored, all degradation parameters fitted in the
mmkin model are used as fixed parameters}

\item{random}{If not specified, all fixed effects are complemented
with uncorrelated random effects}

\item{groups}{See the documentation of nlme}

\item{start}{If not specified, mean values of the fitted degradation
parameters taken from the mmkin object are used}

\item{correlation}{See the documentation of nlme}

\item{weights}{passed to nlme}

\item{subset}{passed to nlme}

\item{method}{passed to nlme}

\item{na.action}{passed to nlme}

\item{naPattern}{passed to nlme}

\item{control}{passed to nlme}

\item{verbose}{passed to nlme}
}
\value{
Upon success, a fitted nlme.mmkin object, which is an nlme object
  with additional elements
}
\description{
This functions sets up a nonlinear mixed effects model for an mmkin row
object. An mmkin row object is essentially a list of mkinfit objects that
have been obtained by fitting the same model to a list of datasets.
}
\examples{
ds <- lapply(experimental_data_for_UBA_2019[6:10],
 function(x) subset(x$data[c("name", "time", "value")], name == "parent"))
f <- mmkin("SFO", ds, quiet = TRUE, cores = 1)
library(nlme)
f_nlme <- nlme(f)
nlme(f, random = parent_0 ~ 1)
f_nlme <- nlme(f, start = c(parent_0 = 100, log_k_parent_sink = 0.1))
update(f_nlme, random = parent_0 ~ 1)
}
\seealso{
\code{\link{nlme_function}}
}