From 59e2c3b5ce470ace53b93ad5e6e7d9acbfe86f21 Mon Sep 17 00:00:00 2001
From: Johannes Ranke <jranke@uni-bremen.de>
Date: Fri, 25 Apr 2014 18:43:51 +0200
Subject: McCall 2,4,5-T dataset, lower bound for transform_rates=FALSE

---
 man/mccall81_245T_soil_metabolism.Rd | 35 +++++++++++++++++++++++++++++++++++
 man/mkinfit.Rd                       |  1 +
 2 files changed, 36 insertions(+)
 create mode 100644 man/mccall81_245T_soil_metabolism.Rd

(limited to 'man')

diff --git a/man/mccall81_245T_soil_metabolism.Rd b/man/mccall81_245T_soil_metabolism.Rd
new file mode 100644
index 0000000..2ccc23d
--- /dev/null
+++ b/man/mccall81_245T_soil_metabolism.Rd
@@ -0,0 +1,35 @@
+\name{mccall81_245T_soil_metabolism}
+\Rdversion{1.1}
+\alias{commerce}
+\alias{catlin}
+\alias{fargo}
+\alias{keith}
+\alias{walla_walla}
+\alias{cecil}
+\docType{data}
+\title{
+  Datasets on aerobic soil metabolism of 2,4,5-T in six soils
+}
+\description{
+ Time course of 2,4,5-trichlorophenoxyacetic acid, and the corresponding 2,4,5-trichlorophenol and 
+ 2,4,5-trichloroanisole as recovered in diethylether extracts.
+}
+\usage{mccall81_245T_soil_metabolism}
+\format{
+  6 dataframes containing the following variables.
+  \describe{
+    \item{\code{name}}{the name of the compound observed. Note that T245 is used as an acronym for 2,4,5-T. T245 is 
+                       a legitimate object name in R, which is necessary for
+                       specifying models using \code{\link{mkinmod}}.}
+    \item{\code{time}}{a numeric vector containing sampling times in days after treatment}
+    \item{\code{value}}{a numeric vector containing concentrations in percent of applied radioactivity}
+  }
+}
+\source{
+  McCall P, Vrona SA, Kelley SS (1981) Fate of uniformly carbon-14 ring labeled 2,4,5-Trichlorophenoxyacetic acid and 2,4-dichlorophenoxyacetic acid. J Agric Chem 29, 100-107
+  \url{http://dx.doi.org/10.1021/jf00103a026}
+}
+\examples{
+  commerce
+}
+\keyword{datasets}
diff --git a/man/mkinfit.Rd b/man/mkinfit.Rd
index 839580a..823ceee 100644
--- a/man/mkinfit.Rd
+++ b/man/mkinfit.Rd
@@ -110,6 +110,7 @@ mkinfit(mkinmod, observed,
     assumption of normal distribution of the estimator. If TRUE, also 
     alpha and beta parameters of the FOMC model are log-transformed, as well 
     as k1 and k2 rate constants for the DFOP and HS models.
+    If TRUE, zero is used as a lower bound for the rates in the optimisation.
   }
   \item{transform_fractions}{
     Boolean specifying if formation fractions constants should be transformed in the
-- 
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