Model parameter summaries over all 4 runs sampled in files "TOL_sabd_1cl_2mu_2g.run1.p", "TOL_sabd_1cl_2mu_2g.run2.p" etc: Summaries are based on a total of 1004 samples from 4 runs. Each run produced 501 samples of which 251 samples were included. Parameter summaries saved to file "TOL_sabd_1cl_2mu_2g.pstat". 95% HPD Interval -------------------- Parameter Mean Variance Lower Upper Median min ESS* avg ESS PSRF+ -------------------------------------------------------------------------------------------------------------------- TH{all} 0.284516 0.000446 0.239686 0.320113 0.286272 13.33 42.68 1.029 TL{all} 7.074833 0.071099 6.549373 7.602273 7.091631 7.00 41.65 1.039 r(A<->C){1} 0.080422 0.000009 0.074933 0.086199 0.080469 70.96 198.94 0.999 r(A<->G){1} 0.377143 0.000066 0.361677 0.392979 0.377037 147.99 207.29 1.000 r(A<->T){1} 0.093805 0.000022 0.084956 0.103170 0.093844 173.37 226.03 0.998 r(C<->G){1} 0.040315 0.000003 0.037114 0.043345 0.040289 200.39 228.55 1.000 r(C<->T){1} 0.345007 0.000063 0.329829 0.360639 0.344977 152.95 195.49 1.000 r(G<->T){1} 0.063308 0.000006 0.058817 0.068342 0.063354 213.83 228.34 0.999 r(A<->C){2} 0.120698 0.000014 0.113150 0.127408 0.120646 251.00 251.00 0.998 r(A<->G){2} 0.362923 0.000055 0.347424 0.376406 0.362883 210.06 230.71 0.998 r(A<->T){2} 0.051332 0.000005 0.047442 0.055788 0.051324 244.25 248.08 0.998 r(C<->G){2} 0.114078 0.000016 0.106932 0.122460 0.114045 230.49 238.28 0.999 r(C<->T){2} 0.271575 0.000041 0.258883 0.283262 0.271493 231.60 246.15 0.998 r(G<->T){2} 0.079393 0.000010 0.073048 0.085670 0.079407 161.93 212.54 0.999 r(A<->C){3} 0.135322 0.000036 0.124032 0.146849 0.135183 211.16 237.45 0.999 r(A<->G){3} 0.315795 0.000118 0.294165 0.335289 0.316096 193.45 217.74 0.999 r(A<->T){3} 0.049871 0.000014 0.041897 0.056501 0.049757 239.96 248.24 1.000 r(C<->G){3} 0.103281 0.000038 0.091449 0.114448 0.103056 140.57 208.81 1.002 r(C<->T){3} 0.339547 0.000147 0.314566 0.361586 0.339593 179.04 219.28 0.999 r(G<->T){3} 0.056184 0.000020 0.047593 0.064933 0.055950 103.31 194.41 0.998 r(A<->C){4} 0.098527 0.000007 0.093716 0.103920 0.098544 195.62 232.67 1.000 r(A<->G){4} 0.300814 0.000036 0.289513 0.312141 0.300804 182.48 225.53 1.000 r(A<->T){4} 0.074662 0.000007 0.069349 0.079696 0.074544 251.00 251.00 0.999 r(C<->G){4} 0.085311 0.000007 0.080279 0.090562 0.085211 138.68 204.92 0.999 r(C<->T){4} 0.345817 0.000046 0.333065 0.359059 0.345661 234.33 246.83 0.999 r(G<->T){4} 0.094870 0.000012 0.088268 0.101184 0.094758 172.54 223.71 0.999 r(A<->C){5} 0.084588 0.000005 0.080227 0.089114 0.084543 205.67 213.33 0.999 r(A<->G){5} 0.373532 0.000033 0.362157 0.384027 0.373422 218.41 236.92 1.000 r(A<->T){5} 0.053231 0.000003 0.050192 0.056120 0.053223 236.45 244.16 1.001 r(C<->G){5} 0.066575 0.000008 0.061278 0.072310 0.066606 226.09 244.77 0.999 r(C<->T){5} 0.341762 0.000031 0.331732 0.353049 0.341676 251.00 251.00 1.000 r(G<->T){5} 0.080311 0.000006 0.075732 0.084944 0.080278 185.42 231.04 0.998 r(A<->C){6} 0.094020 0.000008 0.088264 0.099219 0.093907 195.44 225.42 0.999 r(A<->G){6} 0.339958 0.000040 0.328543 0.353780 0.340118 83.86 177.00 0.998 r(A<->T){6} 0.050827 0.000003 0.047729 0.054358 0.050828 251.00 251.00 0.999 r(C<->G){6} 0.103491 0.000014 0.095552 0.110759 0.103387 200.81 227.03 1.000 r(C<->T){6} 0.325452 0.000040 0.313016 0.337576 0.325309 96.89 212.47 0.999 r(G<->T){6} 0.086252 0.000008 0.080196 0.091511 0.086313 219.87 243.22 0.999 r(A<->C){7} 0.140257 0.000072 0.123967 0.156753 0.140186 124.03 207.17 0.998 r(A<->G){7} 0.344846 0.000176 0.320421 0.369926 0.345168 169.17 230.54 0.999 r(A<->T){7} 0.100322 0.000069 0.084458 0.116626 0.100076 165.03 212.94 0.998 r(C<->G){7} 0.124441 0.000059 0.110793 0.140350 0.124272 176.39 216.68 0.998 r(C<->T){7} 0.215662 0.000143 0.195297 0.241202 0.214675 150.79 213.16 0.999 r(G<->T){7} 0.074473 0.000046 0.061796 0.087612 0.074089 141.76 209.63 1.000 pi(A){1} 0.126720 0.000009 0.121235 0.132463 0.126738 204.13 230.91 0.999 pi(C){1} 0.383590 0.000024 0.373575 0.392687 0.383609 168.48 219.64 0.999 pi(G){1} 0.318178 0.000024 0.308908 0.328224 0.318221 146.12 217.64 0.999 pi(T){1} 0.171513 0.000012 0.164895 0.177679 0.171535 200.86 219.14 0.999 pi(A){2} 0.276196 0.000016 0.268558 0.284120 0.276121 205.82 232.74 1.000 pi(C){2} 0.242697 0.000016 0.234133 0.249984 0.242800 199.83 220.88 0.998 pi(G){2} 0.217178 0.000015 0.209246 0.224318 0.217103 251.00 251.00 0.999 pi(T){2} 0.263929 0.000016 0.256213 0.271809 0.264031 213.83 239.05 0.999 pi(A){3} 0.309594 0.000025 0.299222 0.319210 0.309641 126.68 209.10 1.000 pi(C){3} 0.220606 0.000021 0.212277 0.229634 0.220441 195.55 222.19 0.998 pi(G){3} 0.240229 0.000023 0.230793 0.249332 0.240215 227.28 245.07 1.000 pi(T){3} 0.229571 0.000022 0.219782 0.237678 0.229666 106.36 203.36 0.998 pi(A){4} 0.334442 0.000017 0.326888 0.342630 0.334556 170.21 216.84 0.998 pi(C){4} 0.247847 0.000014 0.241012 0.255287 0.247814 187.20 235.05 1.001 pi(G){4} 0.241882 0.000013 0.234633 0.248369 0.242007 108.64 200.39 1.000 pi(T){4} 0.175829 0.000011 0.169533 0.182206 0.175804 224.24 239.49 1.001 pi(A){5} 0.284803 0.000012 0.278148 0.291920 0.284613 170.16 225.68 1.002 pi(C){5} 0.236123 0.000010 0.230029 0.242342 0.236093 133.51 201.54 0.999 pi(G){5} 0.183794 0.000009 0.177462 0.189768 0.183818 208.39 240.35 1.000 pi(T){5} 0.295280 0.000013 0.288106 0.302153 0.295370 182.41 229.05 0.999 pi(A){6} 0.355502 0.000019 0.347772 0.364381 0.355320 228.28 237.16 0.998 pi(C){6} 0.186834 0.000012 0.179641 0.192737 0.186722 147.42 217.88 0.999 pi(G){6} 0.200558 0.000011 0.194084 0.206399 0.200509 236.09 247.27 1.000 pi(T){6} 0.257106 0.000016 0.248638 0.264310 0.257231 133.51 205.40 0.999 alpha{1} 2.052076 0.006098 1.907479 2.199973 2.053121 215.52 242.13 0.998 alpha{2} 0.844615 0.002548 0.744333 0.939397 0.842545 158.77 223.13 1.001 alpha{3} 0.734530 0.004931 0.603413 0.872036 0.730875 103.85 163.70 0.999 alpha{4} 2.217750 0.012264 2.018529 2.440379 2.215375 217.09 238.13 1.001 alpha{5} 4.326275 0.043589 3.912024 4.733258 4.317513 182.82 220.98 0.998 alpha{6} 4.176692 0.048956 3.776325 4.623463 4.167613 123.77 216.48 0.999 alpha{7} 1.221096 0.024204 0.904733 1.511512 1.218729 131.64 221.16 0.998 alpha{8,9,10,11,12,13,14} 0.231991 0.000019 0.223440 0.240424 0.232062 176.99 228.35 0.999 pinvar{1} 0.019414 0.000017 0.011153 0.027280 0.019678 185.26 234.56 0.999 pinvar{2} 0.164081 0.000317 0.130992 0.198644 0.163490 131.79 217.84 1.001 pinvar{3} 0.598060 0.000263 0.568416 0.630458 0.598549 88.13 181.25 0.998 pinvar{4} 0.040716 0.000047 0.027753 0.054262 0.040801 230.24 242.16 0.999 pinvar{5} 0.017762 0.000007 0.012151 0.022540 0.017655 219.63 243.16 0.998 pinvar{6} 0.030766 0.000012 0.024300 0.038042 0.030803 164.26 229.31 0.999 pinvar{7} 0.155600 0.000932 0.094002 0.209958 0.158814 193.44 208.92 0.998 m{1} 2.088741 0.000731 2.031563 2.138432 2.088256 156.89 208.76 0.999 m{2} 0.595151 0.000090 0.577267 0.615003 0.595087 213.15 231.79 0.998 m{3} 0.201841 0.000039 0.189399 0.213373 0.201539 244.99 249.50 0.998 m{4} 0.991467 0.000138 0.967253 1.012902 0.990916 235.54 244.15 1.001 m{5} 1.382590 0.000161 1.358254 1.407430 1.382549 209.61 239.40 1.000 m{6} 1.405925 0.000235 1.375730 1.434743 1.406356 189.70 234.65 0.998 m{7} 0.904800 0.001639 0.825090 0.981001 0.904114 194.18 226.36 1.001 net_speciation{all} 0.023868 0.000013 0.016950 0.030976 0.023776 224.28 242.61 1.007 relative_extinction{all} 0.933253 0.000980 0.871592 0.978886 0.939897 145.62 197.60 1.005 relative_fossilization{all} 0.000608 0.000000 0.000089 0.001325 0.000510 174.18 223.87 1.003 igrvar{all} 0.012189 0.000003 0.009293 0.015654 0.011982 28.30 96.76 1.003 clockrate{all} 0.001274 0.000000 0.001068 0.001447 0.001285 17.44 38.89 1.029 -------------------------------------------------------------------------------------------------------------------- * Convergence diagnostic (ESS = Estimated Sample Size); min and avg values correspond to minimal and average ESS among runs. ESS value below 100 may indicate that the parameter is undersampled. + Convergence diagnostic (PSRF = Potential Scale Reduction Factor; Gelman and Rubin, 1992) should approach 1.0 as runs converge.