autoplot.isomap: ggplot-based plot for objects of class '"isomap"'

In gavinsimpson/ggvegan: 'ggplot2' Plots for the 'vegan' Package

ggplot-based plot for objects of class "isomap"

Description

Produces a multi-layer ggplot object representing the output of objects produced by isomap.

Usage

## S3 method for class 'isomap'
autoplot(
  object,
  axes = c(1, 2),
  geom = c("point", "text"),
  network = TRUE,
  line.col = "grey85",
  size = 0.7,
  xlab = NULL,
  ylab = NULL,
  title = "Isometric feature mapping",
  subtitle = NULL,
  caption = NULL,
  ...
)

Arguments

object	an object of class "isomap", the result of a call to isomap.
axes	numeric; which axes to plot, given as a vector of length 2.
geom	character; which geom to use for the MDS scores layer.
network	logical; should the edges of the ISOMAP network be drawn?
line.col	colour with which to draw the network edges.
size	numeric; size aesthetic for the log-series curve.
xlab	character; label for the x-axis.
ylab	character; label for the y-axis.
title	character; subtitle for the plot.
subtitle	character; subtitle for the plot.
caption	character; caption for the plot.
...	additional arguments passed to other methods.

Value

A ggplot object.

Author(s)

Gavin L. Simpson

Examples

data(BCI)
dis <- vegdist(BCI)
ord <- isomap(dis, k = 3)

autoplot(ord)

autoplot(ord, geom = "text")

gavinsimpson/ggvegan documentation built on July 28, 2023, 9:24 a.m.