palplot {paltran}R Documentation

Plotting a simple stratigraphic plot for paleoecology

Description

Plotting a simple stratigraphic plot for paleoecology. To analyse the reconstructed environmental parameters a trend line can bee drawn.

Usage

palplot(..., col = "red", trend = TRUE, trendcol = "gray90", lty = 1, lwd = 1, k = FALSE, polyg = TRUE, colpoly = "gray90", trans = FALSE, meth = "loess", span = 0.2, conf.t = TRUE, xlab = "inferred env. factor", ylab = "sample", main = "reconstruction", cex = 1.5, pch = 20, type = "p")

Arguments

... x,y: x (required) - inferred environmental parameter, y (if in hand) age of the samples
col color of points
trend TRUE/FALSE - should a trend line bee drawn
trendcol color of the trend line
lty line type of the trend line,see ?plot for more information
lwd line width of the trend line,see ?plot for more information
k if a GAM is used for the trend: number of knots
polyg Should the trend shaded?
colpoly color of the shaded trend
trans are the data tranformed? Here they can be backtransformed: "log10" for log10 transformed data, "log" for ln transformed data and "sqrt" for sqrt transformed data
meth method for analysing the trend: "loess" or "gam"
span span of the loess function
conf.t should a confidence intervall bee calculated for the trend?
xlab label x axis
ylab label x axis
main label main
cex size of symbols
pch symbols, see ?plot for more information
type "p" for points, "l" for line, "b" for both

Value

env.inferred inferred environmental parameter
env.trend fitted values of the estimated trend
trend.conf.up fitted values of the estimated confidence intervall
trend.conf.un fitted values of the estimated confidence intervall
summary.trend summary of the trend

Author(s)

Sven Adler, sven.adler2@uni-rostock.de, University Rostock, Institute for Biosciences, General and Systematic Botany, Germany

Examples

data(age_dud)
data(dud.df)
data(train_set.MV)
data(train_env.MV)

fit1<-wa(train_set.MV,train_env.MV,dud.df)
palplot(fit1$reconstruction,age_dud)
palplot(fit1$reconstruction,age_dud,trans="log10",main="TP for lake Dudinghausen", ylab="TP")

[Package paltran version 1.0-0 Index]