Tracer 1.6

Free app for analyzing the trace files generated with the Bayesian MCMC
Tracer
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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.

last updated on:
June 26th, 2014, 3:25 GMT
file size:
5.8 MB
price:
FREE!
license type:
Freeware
developed by:
Andrew Rambaut
operating system(s):
Mac OS X 10.4 or later
binary format:
Universal Binary
category:
Home \ Math/Scientific
Tracer
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What's New in This Release:
  • New features:
  • Multilocus 'Skygrid' analysis option - use this option when analysing BEAST output generated under this model.
  • Density plots are now drawn as kernal density estimates instead of histograms.
  • Traces can be designated as integer or categorical with appropriate plots and statistics given.
read full changelog

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