10/24/2011

Johan Nylander


Some shell scripts (bash) for plotting MCMC output (e.g., from MrBayes v.3, BEAST, etc) using gnuplot (www.gnuplot.info).

plotMCMCoutput.sh  -- General script for quickly plotting column data.
                      For example, to plot several MrBayes *.p files overlayed:

                          plotMCMCoutput.sh *.p

                      Use 'plotMCMCoutput.sh -h' for more info on options.

run1.p             -- Example parameter file from MrBayes v.3
run2.p             -- Example parameter file from MrBayes v.3

plotstddev         -- Plot the standard deviation of split frequencies in a MrBayes .mcmc file
plotstddev_term.sh -- Plot the standard deviation of split frequencies in a MrBayes .mcmc file,
                      but plot in terminal window instead of device.

runs.1.2.mcmc      -- Example .mcmc file from MrBayes v.3


Screenshots