gbm.persp: gbm perspective plot

gbm.perspecR Documentation

gbm perspective plot

Description

Takes a gbm boosted regression tree object produced by gbm.step and plots a perspective plot showing predicted values for two predictors as specified by number using x and y. Values for all other variables are set at their mean by default but values can be specified by giving a list consisting of the variable name and its desired value, e.g., c(name1 = 12.2, name2 = 57.6)

Usage

gbm.perspec(gbm.object, x = 1, y = 2, pred.means = NULL, x.label = NULL, x.range = NULL,
 y.label = NULL, z.label = "fitted value", y.range = NULL, z.range = NULL, 
 leg.coords = NULL, ticktype = "detailed", theta = 55, phi = 40, smooth = "none",
 mask = FALSE, perspective = TRUE, ...)

Arguments

gbm.object

object of class gbm

x

the first variable to be plotted

y

the second variable to be plotted

pred.means

allows specification of values for other variables

x.label

allows manual specification of the x label

x.range

manual range specification for the x variable

y.label

and y label

z.label

default z label

y.range

and the y

z.range

allows control of the vertical axis

leg.coords

can specify coords (x, y) for legend

ticktype

specifiy detailed types - otherwise "simple"

theta

rotation

phi

and elevation

smooth

controls smoothing of the predicted surface

mask

controls masking using a sample intensity model

perspective

controls whether a contour or perspective plot is drawn

...

allows the passing of additional arguments to plotting routine useful options include shade, ltheta, lphi for controlling illumination and cex for controlling text size - cex.axis and cex.lab have no effect

Author(s)

John R. Leathwick and Jane Elith

References

Elith, J., J.R. Leathwick and T. Hastie, 2009. A working guide to boosted regression trees. Journal of Animal Ecology 77: 802-81


dismo documentation built on May 31, 2023, 6:15 p.m.