diff options
Diffstat (limited to 'R/kinplot.R')
| -rw-r--r-- | R/kinplot.R | 128 |
1 files changed, 90 insertions, 38 deletions
diff --git a/R/kinplot.R b/R/kinplot.R index ace1270..394e271 100644 --- a/R/kinplot.R +++ b/R/kinplot.R @@ -1,61 +1,113 @@ +# $Id: kinplot.R 117 2011-06-14 08:52:14Z kati $
+
+# Copyright (C) 2008-2010 Johannes Ranke
+# Contact: mkin-devel@lists.berlios.de
+
+# This file is part of the R package kinfit
+
+# kinfit is free software: you can redistribute it and/or modify it under the
+# terms of the GNU General Public License as published by the Free Software
+# Foundation, either version 3 of the License, or (at your option) any later
+# version.
+
+# This program is distributed in the hope that it will be useful, but WITHOUT
+# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
+# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
+# details.
+
+# You should have received a copy of the GNU General Public License along with
+# this program. If not, see <http://www.gnu.org/licenses/>
+
kinplot <- function(kinobject,
+ main = "",
xlab = "Time [days]", ylab = "Parent [% of applied radioactivity]",
ylim = c("auto", "auto"),
lpos = "topright")
{
kindata <- na.omit(kinobject$data)
kinfits <- kinobject$fits
- if (ylim[1] == "auto") ylim[1] <- 0
- if (ylim[2] == "auto") ylim[2] <- max(kindata$parent)
- ylim <- as.numeric(ylim)
+ if (ylim[1] == "auto") ylim[1] <- 0
+ if (ylim[2] == "auto") ylim[2] <- max(kindata$parent)
+ ylim <- as.numeric(ylim)
plot(kindata$t, kindata$parent,
+ main = main,
xlab = xlab,
ylab = ylab,
ylim = ylim
- )
+ )
n.m <- length(kinfits)
colors <- ltys <- 1:n.m
names(colors) <- names(ltys) <- names(kinfits)
- ltext <- paste(kinobject$parent, "measured")
+ ltext <- paste(kinobject$parent, "measured")
for (kinmodel in names(kinfits))
{
m = kinfits[[kinmodel]]
if(class(m) == "nls") {
- switch(kinmodel,
- SFO = curve(SFO(x,
- coef(m)[["parent.0"]],
- coef(m)[["k"]]),
- from = min(kindata$t), to = max(kindata$t), add=TRUE,
- col = colors[[kinmodel]],
- lty = ltys[[kinmodel]]),
- FOMC = curve(FOMC(x,
- coef(m)[["parent.0"]],
- coef(m)[["alpha"]],
- coef(m)[["beta"]]),
- from = min(kindata$t), to = max(kindata$t), add=TRUE,
- col = colors[[kinmodel]],
- lty = ltys[[kinmodel]]),
- HS = curve(HS(x,
- coef(m)[["parent.0"]],
- coef(m)[["k1"]],
- coef(m)[["k2"]],
- coef(m)[["tb"]]),
- from = min(kindata$t), to = max(kindata$t), add=TRUE,
- col = colors[[kinmodel]],
- lty = ltys[[kinmodel]]),
- DFOP = curve(DFOP(x,
- coef(m)[["parent.0"]],
- coef(m)[["k1"]],
- coef(m)[["k2"]],
- coef(m)[["g"]]),
- from = min(kindata$t), to = max(kindata$t), add=TRUE,
- col = colors[[kinmodel]],
- lty = ltys[[kinmodel]]))
- ltext <- c(ltext, paste("Fitted", kinmodel, "model"))
+ if (!"parent.0" %in% names(coef(m))) {
+ switch(kinmodel,
+ SFO = lines(
+ t <- seq(min(kindata$t), max(kindata$t), length.out=500),
+ predict(m,
+ newdata = data.frame(t)),
+ col = colors[[kinmodel]],
+ lty = ltys[[kinmodel]]),
+ FOMC = lines(
+ t <- seq(min(kindata$t), max(kindata$t), length.out=500),
+ predict(m,
+ newdata = data.frame(t)),
+ col = colors[[kinmodel]],
+ lty = ltys[[kinmodel]]),
+ HS = lines(
+ t <- seq(min(kindata$t), max(kindata$t), length.out=500),
+ predict(m,
+ newdata = data.frame(t)),
+ col = colors[[kinmodel]],
+ lty = ltys[[kinmodel]]),
+ DFOP = lines(
+ t <- seq(min(kindata$t), max(kindata$t), length.out=500),
+ predict(m,
+ newdata = data.frame(t)),
+ col = colors[[kinmodel]],
+ lty = ltys[[kinmodel]])
+ )
+ ltext <- c(ltext, paste("Fitted", kinmodel, "model"))
+ } else {
+ switch(kinmodel,
+ SFO = curve(SFO(x,
+ coef(m)[["parent.0"]],
+ coef(m)[["k"]]),
+ from = min(kindata$t), to = max(kindata$t), add=TRUE,
+ col = colors[[kinmodel]],
+ lty = ltys[[kinmodel]]),
+ FOMC = curve(FOMC(x,
+ coef(m)[["parent.0"]],
+ coef(m)[["alpha"]],
+ coef(m)[["beta"]]),
+ from = min(kindata$t), to = max(kindata$t), add=TRUE,
+ col = colors[[kinmodel]],
+ lty = ltys[[kinmodel]]),
+ HS = curve(HS(x,
+ coef(m)[["parent.0"]],
+ coef(m)[["k1"]],
+ coef(m)[["k2"]],
+ coef(m)[["tb"]]),
+ from = min(kindata$t), to = max(kindata$t), add=TRUE,
+ col = colors[[kinmodel]],
+ lty = ltys[[kinmodel]]),
+ DFOP = curve(DFOP(x,
+ coef(m)[["parent.0"]],
+ coef(m)[["k1"]],
+ coef(m)[["k2"]],
+ coef(m)[["g"]]),
+ from = min(kindata$t), to = max(kindata$t), add=TRUE,
+ col = colors[[kinmodel]],
+ lty = ltys[[kinmodel]]))
+ ltext <- c(ltext, paste("Fitted", kinmodel, "model"))
+ }
} else {
- ltext <- c(ltext, paste(kinmodel, "model failed"))
- ltys[[kinmodel]] <- NA
+ ltext <- c(ltext, paste(kinmodel, "model failed"))
+ ltys[[kinmodel]] <- NA
}
}
legend(lpos, bty="n", inset = 0.05,
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