Initial upload of the upcoming multicompartment version of kinfit.

Some functionality is still missing (chi2), some may never be implemented
(FOMC model), but in general it is much more powerful than kinfit, owing
to the powerful FME package.



git-svn-id: svn+ssh://svn.r-forge.r-project.org/svnroot/kinfit/pkg/mkin@8 edb9625f-4e0d-4859-8d74-9fd3b1da38cb

1 files changed, 44 insertions, 0 deletions

diff --git a/man/mkinmod.Rd b/man/mkinmod.Rd
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+\name{mkinmod}

+\alias{mkinmod}

+\title{

+  Function to set up a kinetic model with one or more state variables.

+}

+\description{

+  The function takes a specification, consisting of a list of the observed variables

+  in the data. Each observed variable is again represented by a list, specifying the 

+  kinetic model type and reaction or transfer to other observed compartments.

+}

+\usage{

+mkinmod(spec = list(parent = list(type = "SFO", to = NA, sink = TRUE)))

+}

+\arguments{

+  \item{spec}{

+    A list of observed variables to be modelled. Each observed variable has to be 

+    represented by a list with the following entries:

+    \code{type}{ The type of kinetics to use for the variable. Currently, only

+      single first order kinetics "SFO" or single first order with reversible binding

+      "SFORB" are implemented. }

+    \code{to}{ A vector of names of variables to which a transfer is to be assumed

+      in the model. }

+    \code{sink}{ Boolean, specifying if transformation to unspecified compounds (sink) 

+      is to be assumed in the model. }

+  }

+}

+\value{

+  A list of class \code{mkinmod} for use with \code{\link{mkinfit}}, containing 

+    \item{diffs}{ A vector of string representations of differential equations,

+      one for each modelling variable. }

+    \item{parms}{ A vector of parameter names occurring in the differential equations. }

+    \item{map}{ A list containing named character vectors for each observed variable, specifying

+      the modelling variables by which it is represented. }

+}

+\author{

+  Johannes Ranke <jranke@{harlan.com,uni-bremen.de}>

+}

+\examples{

+# One parent compound, one metabolite, both single first order.

+SFO_SFO <- mkinmod(spec = list(

+  parent = list(type = "SFO", to = "m1", sink = TRUE),

+  m1 = list(type = "SFO", to = NA, sink = TRUE)))

+}

+\keyword{ models }