Contents

Output to screen during run

         Rep#: Alpha   Corr   D1,2   Ln Like   Est Ln P(D) 
         4500: 0.009   6.1   0.831   -2730      -2776
         4525: 0.010   9.1   0.806   -2716      -2776
         4550: 0.008   7.3   0.792   -2734      -2775
 

The example above shows part of the output to the screen during a run. Here, ``rep'' gives the number of MCMC iterations so far, including the burnin; ``Alpha'' is the current value of $\alpha$; ``Corr'' is the current mean (across loci) value of the correlation coefficient$f^{(l)}$ (see FREQSCORR); ``D1,2'' is a measure of divergence between populations 1 and 2 (see PRINTKLD); ``Ln Like'' is the log likelihood of the data given the current values of $P$ and $Q$; ``Est Ln P(D)'' is the current estimate of $\ln(P(X\vert K))$ (averaging over all iterations since the end of the burnin period). Some of these columns may not be printed, depending on the program options chosen. If $K$ gets large, it may be worth setting PRINTKLD=0 in order to make the output easier to read.