branching.diffusion: Animation of branching random diffusion

In phytools: Phylogenetic Tools for Comparative Biology (and Other Things)

Animation of branching random diffusion

Description

This function creates an animation of branching random diffusion (i.e., Brownian motion evolution with speciation).

Usage

branching.diffusion(sig2=1, b=0.0023, time.stop=1000, ylim=NULL, 
   smooth=TRUE, pause=0.02, record=NULL, path=NULL, ...)

Arguments

sig2	variance of BM process, \sigma^2.
b	birthrate for branching process.
time.stop	number of generations to run.
ylim	y limits (for plotting).
smooth	no longer used.
pause	pause (in s) between generations.
record	filename for video file output (no video if NULL).
path	full path to file for video rendering. (By default branching.diffusion will look for the executable ffmpeg.exe in the directory C:/Program Files/ffmpeg/bin, even though this will not make sense on non-Windows machines.)
...	optional arguments.

Details

For animation to be recorded to file, the function requires the package animation as well as a video renderer.

Value

An animated plot and (optionally) a recorded video file.

Author(s)

Liam Revell [e-mail]

References

Revell, L. J. (2024) phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things). PeerJ, 12, e16505.

See Also

bmPlot, fastBM

phytools documentation built on Nov. 5, 2025, 5:11 p.m.