Description Usage Arguments Value Author(s) References Examples
Given a vegetation data frame containing various time series this plots a pca-ordination (pca
) and connects points belonging to the same series with lines. The plots where the releves come from are identified by plotlabels (see below).
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veg |
This is a vegetation data frame, releves are rows, species columns |
plotlabels |
Plot names. Rows with identical name are assumed to belong to the same time series. |
y |
Transformation of species scores: x'= x exp(y) |
... |
Parameter lines=TRUE will connect the series. Otherwise they are distinguished by symbols used in plot only. |
x |
An object of class "pcaser". |
lines |
A logical variable. When TRUE then points of the same time series are connected. |
arrows |
A logical variable. When TRUE then the first and the last points of the same time series are connected. |
An object of class "pcaser" with at least the following items:
comp1 |
Description of 'comp1' |
nrel |
Total number of releves involved (i.e., row number) |
nser |
Total number of time series (i.e., locations where the data stem from |
scores |
The pca-ordination scores |
plotlab |
Plot labels used for plotting |
plotlabels |
Plot names |
Eigv |
Eigenvalues (percentage) |
Otto Wildi
Wildi, O. 2017. Data Analysis in Vegetation Ecology. 3rd ed. CABI, Oxfordshire, Boston.
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Loading required package: labdsv
Loading required package: mgcv
Loading required package: nlme
This is mgcv 1.8-20. For overview type 'help("mgcv-package")'.
Loading required package: MASS
Loading required package: cluster
Attaching package: 'labdsv'
The following object is masked from 'package:stats':
density
Loading required package: vegan
Loading required package: permute
Loading required package: lattice
This is vegan 2.4-4
Call:
pcaser.default(veg = sn6veg, plotlabels = sn6sit$Plot.no, y = 0.25)
Eigenvalues (first 5): 68.561 17.557 8.072 4.252 1.025
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