Tracer Tracer - Free app for analyzing the trace files generated by Bayesian MCMC runs
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Tracer - Free app for analyzing the trace files generated by Bayesian MCMC runs Tracer is a free app for analyzing the trace files generated by Bayesian MCMC runs (that is, the continuous parameter values sampled from the chain). It can be used to analyze runs of MrBayes, LAMARC, BEAST, and possibly other MCMC programs.There are 4 analysis tabs to choose from:· Estimates - this shows the mean, stdev, confidence intervals and other statistics about the selected parameter. A frequency distribution will also be plotted.· Density - this shows the Bayesian posterior density plot for the selected parameter.· Joint-Marginal - this only appears if exactly 2 parameters are choosen (hold down shift to select multiple parameters). It then plots one against the other to look at their joint-marginal distribution.· Trace - this shows the trace of the parameter against state or generation number. Use this to check mixing, choose a suitable burn-in and look for trends that might suggest problems with convergence.Requirements:· Java 1.5 or later

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