Plot free energy profile

`plot.profiles` plots evolution of free energy differences between minima. They are colored by rainbow colors from the global one (blue) to the highest (red).

# S3 method for profiles
plot(x, which = NULL, ignoretime = FALSE,
  xlim = NULL, ylim = NULL, main = NULL, sub = NULL, xlab = NULL,
  ylab = NULL, col = NULL, asp = NULL, lwd = 1, axes = T, ...)

Arguments

x

profiles object.

which

vector of indexes of profiles to be plotted (default all).

ignoretime

time in the first column of the HILLS file will be ignored.

xlim

numeric vector of length 2, giving the x coordinates range.

ylim

numeric vector of length 2, giving the y coordinates range.

main

an overall title for the plot: see 'title'.

sub

a sub title for the plot: see 'title'.

xlab

a title for the x axis: see 'title'.

ylab

a title for the y axis: see 'title'.

col

color code or name, see 'par'.

asp

the y/x aspect ratio, see 'plot.window'.

lwd

line width.

axes

a logical value indicating whether both axes should be drawn on the plot.

...

further arguments passed to or from other methods.

Examples

tfes<-fes(acealanme, imax=5000)
minima<-fesminima(tfes)
prof<-feprof(minima)
plot(prof)