Trajectory Plot
Generic function for a trajectory plot.
trplot(object, ...)
object |
An object for which a trajectory plot is meaningful. |
... |
Other arguments fed into the specific
methods function of the model. They usually are graphical
parameters, and sometimes they are fed
into the methods function for |
Trajectory plots can be defined in different ways for different models. Many models have no such notion or definition.
For quadratic and additive ordination models they plot the fitted values of two species against each other (more than two is theoretically possible, but not implemented in this software yet).
The value returned depends specifically on the methods function invoked.
Thomas W. Yee
Yee, T. W. (2020). On constrained and unconstrained quadratic ordination. Manuscript in preparation.
## Not run: set.seed(123)
hspider[, 1:6] <- scale(hspider[, 1:6]) # Standardized environmental vars
p1cqo <- cqo(cbind(Alopacce, Alopcune, Alopfabr, Arctlute, Arctperi,
Auloalbi, Pardlugu, Pardmont, Pardnigr, Pardpull,
Trocterr, Zoraspin) ~
WaterCon + BareSand + FallTwig + CoveMoss + CoveHerb + ReflLux,
poissonff, data = hspider, Crow1positive = FALSE)
nos <- ncol(depvar(p1cqo))
clr <- 1:nos # OR (1:(nos+1))[-7] to omit yellow
trplot(p1cqo, which.species = 1:3, log = "xy",
col = c("blue", "orange", "green"), lwd = 2, label = TRUE) -> ii
legend(0.00005, 0.3, paste(ii$species[, 1], ii$species[, 2], sep = " and "),
lwd = 2, lty = 1, col = c("blue", "orange", "green"))
abline(a = 0, b = 1, lty = "dashed", col = "grey")
## End(Not run)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.