ggvegan (version 0.1-0)

autoplot.isomap: 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 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.

Examples

# NOT RUN {
data(BCI)
dis <- vegdist(BCI)
ord <- isomap(dis, k = 3)

autoplot(ord)

autoplot(ord, geom = "text")
# }