ecospat.plot.niche.dyn: Plot of categories of Niche dynamics and Species Density

View source: R/ecospat.nichedynamic.R

ecospat.plot.niche.dynR Documentation

Plot of categories of Niche dynamics and Species Density

Description

Plot niche categories of niche dynamics between two species densities created by ecospat.grid.clim.dyn.

Usage

ecospat.plot.niche.dyn(z1, z2, intersection = 0, title = "", name.axis1 =
                   "Axis 1", name.axis2 = "Axis 2", interest = 1, col.abn
                   = "lightgreen", col.unf = "green", col.exp = "red",
                   col.stab = "blue", col.pio = "pink", col.NA = "grey",
                   colZ1 = "green3", colZ2 = "red3", transparency = 70,...)

Arguments

z1

A gridclim object for the native distribution.

z2

A gridclim object for the invaded range.

intersection

The quantile of the environmental density used to delimit marginal climates. If intersection=0, the analysis is performed at the intersection between native and invaded range. If intersection=0.05, the analysis is performed at the intersection of the 5th quantile of both native and invaded environmental densities

title

The title of the plot.

name.axis1

A label for the first axis.

name.axis2

A label for the second axis

interest

Choose which density to plot: if interest=1, plot native density, if interest=2, plot invasive density.

col.abn

The color used to depict the abandonment niche.

col.unf

The color used to depict the unfilling niche.

col.exp

The color used to depict the expansion niche.

col.stab

The color used to depict the stability niche.

col.pio

The color used to depict the pioneering niche.

col.NA

The color used to depict the environments outside of both niches.

colZ1

The color used to delimit the native extent.

colZ2

The color used to delimit the invaded extent.

transparency

A value between 0 and 100 to set the transparency level of the niche categories

...

Other graphical parameters.

Details

Using the default colors, the plot will show the niche stability in blue, niche expansion in red, and niche unfilling in green. The solid contour line indicates the extent of environmental conditions that exists in the native and invaded ranges; the dotted contour line indicates the quantile indicated by the quant argument. The densities of occurrences are displayed using gray shading. This shading shows occurences in the native or invaded range only, as determined by the value of the interest argument.

Author(s)

Blaise Petitpierre bpetitpierre@gmail.com


ecospat documentation built on May 29, 2024, 8:18 a.m.