Results: Wilcoxon-Rank-Sum Wilcoxon-median t-test t-test-mean mean1 (std) mean2 (std) median1 median2 ######Matthews###### --->fabia-------beagle1--: 3.96e-18 0.608463 1.6e-105 0.608359 0.687155 ( 0.051356) 0.078796 ( 0.021107) 0.693671 0.078327 --->fabia-------beagle2--: 3.96e-18 0.626949 3.17e-106 0.626667 0.687155 ( 0.051356) 0.060488 ( 0.020577) 0.693671 0.059609 --->fabia-------plink----: 3.75e-04 0.021567 1.62e-04 0.021103 0.687155 ( 0.051356) 0.666051 ( 0.017330) 0.693671 0.668492 --->fabia-------germline1: 3.96e-18 0.704155 2.57e-115 0.703576 0.687155 ( 0.051356) -0.016421 ( 0.008768) 0.693671 -0.015069 --->fabia-------germline2: 3.96e-18 0.705471 1.73e-115 0.704702 0.687155 ( 0.051356) -0.017547 ( 0.008629) 0.693671 -0.017855 --->fabia-------dash-----: 3.96e-18 0.668823 1.15e-112 0.668053 0.687155 ( 0.051356) 0.019102 ( 0.002503) 0.693671 0.018568 --->beagle1-----beagle2--: 1.61e-11 0.018615 2.68e-13 0.018308 0.078796 ( 0.021107) 0.060488 ( 0.020577) 0.078327 0.059609 --->beagle1-----plink----: 3.96e-18 -0.587662 6.07e-135 -0.587256 0.078796 ( 0.021107) 0.666051 ( 0.017330) 0.078327 0.668492 --->beagle1-----germline1: 3.96e-18 0.095051 1.83e-66 0.095217 0.078796 ( 0.021107) -0.016421 ( 0.008768) 0.078327 -0.015069 --->beagle1-----germline2: 3.96e-18 0.095793 4.35e-68 0.096343 0.078796 ( 0.021107) -0.017547 ( 0.008629) 0.078327 -0.017855 --->beagle1-----dash-----: 3.96e-18 0.059906 2.7e-49 0.059694 0.078796 ( 0.021107) 0.019102 ( 0.002503) 0.078327 0.018568 --->beagle2-----plink----: 3.96e-18 -0.605103 1.31e-136 -0.605563 0.060488 ( 0.020577) 0.666051 ( 0.017330) 0.059609 0.668492 --->beagle2-----germline1: 3.96e-18 0.076794 6.5e-61 0.076909 0.060488 ( 0.020577) -0.016421 ( 0.008768) 0.059609 -0.015069 --->beagle2-----germline2: 3.96e-18 0.078025 5.18e-61 0.078035 0.060488 ( 0.020577) -0.017547 ( 0.008629) 0.059609 -0.017855 --->beagle2-----dash-----: 4.74e-18 0.041224 1.26e-37 0.041386 0.060488 ( 0.020577) 0.019102 ( 0.002503) 0.059609 0.018568 --->plink-------germline1: 3.96e-18 0.682739 2.37e-154 0.682472 0.666051 ( 0.017330) -0.016421 ( 0.008768) 0.668492 -0.015069 --->plink-------germline2: 3.96e-18 0.683766 2.38e-154 0.683599 0.666051 ( 0.017330) -0.017547 ( 0.008629) 0.668492 -0.017855 --->plink-------dash-----: 3.96e-18 0.647409 4.15e-156 0.646949 0.666051 ( 0.017330) 0.019102 ( 0.002503) 0.668492 0.018568 --->germline1---germline2: 2.19e-01 0.000777 9.67e-02 0.001127 -0.016421 ( 0.008768) -0.017547 ( 0.008629) -0.015069 -0.017855 --->germline1---dash-----: 3.96e-18 -0.035473 2.83e-71 -0.035523 -0.016421 ( 0.008768) 0.019102 ( 0.002503) -0.015069 0.018568 --->germline2---dash-----: 3.96e-18 -0.036655 4.01e-71 -0.036649 -0.017547 ( 0.008629) 0.019102 ( 0.002503) -0.017855 0.018568 ######F1###### --->fabia-------beagle1--: 3.96e-18 0.587857 1.14e-100 0.585399 0.669912 ( 0.056938) 0.084513 ( 0.016867) 0.682578 0.083844 --->fabia-------beagle2--: 3.96e-18 0.605326 9.7e-100 0.602738 0.669912 ( 0.056938) 0.067174 ( 0.023187) 0.682578 0.067702 --->fabia-------plink----: 2.84e-08 0.041379 2.69e-09 0.040047 0.669912 ( 0.056938) 0.629865 ( 0.021264) 0.682578 0.631748 --->fabia-------germline1: 3.96e-18 0.649710 5.23e-107 0.647202 0.669912 ( 0.056938) 0.022710 ( 0.002500) 0.682578 0.023061 --->fabia-------germline2: 3.96e-18 0.652450 2.4e-107 0.650411 0.669912 ( 0.056938) 0.019501 ( 0.003556) 0.682578 0.019439 --->fabia-------dash-----: 8.48e-12 0.055092 9.81e-15 0.052865 0.669912 ( 0.056938) 0.617047 ( 0.009907) 0.682578 0.616685 --->beagle1-----beagle2--: 2.9e-11 0.017143 5.2e-13 0.017339 0.084513 ( 0.016867) 0.067174 ( 0.023187) 0.083844 0.067702 --->beagle1-----plink----: 3.96e-18 -0.546290 9.31e-132 -0.545352 0.084513 ( 0.016867) 0.629865 ( 0.021264) 0.083844 0.631748 --->beagle1-----germline1: 3.96e-18 0.061583 1.42e-59 0.061803 0.084513 ( 0.016867) 0.022710 ( 0.002500) 0.083844 0.023061 --->beagle1-----germline2: 3.96e-18 0.064659 2.8e-62 0.065012 0.084513 ( 0.016867) 0.019501 ( 0.003556) 0.083844 0.019439 --->beagle1-----dash-----: 3.96e-18 -0.532243 9.72e-143 -0.532534 0.084513 ( 0.016867) 0.617047 ( 0.009907) 0.083844 0.616685 --->beagle2-----plink----: 3.96e-18 -0.562577 1.05e-126 -0.562691 0.067174 ( 0.023187) 0.629865 ( 0.021264) 0.067702 0.631748 --->beagle2-----germline1: 7.44e-18 0.044759 8.6e-36 0.044464 0.067174 ( 0.023187) 0.022710 ( 0.002500) 0.067702 0.023061 --->beagle2-----germline2: 4.33e-18 0.047939 1.82e-38 0.047673 0.067174 ( 0.023187) 0.019501 ( 0.003556) 0.067702 0.019439 --->beagle2-----dash-----: 3.96e-18 -0.549954 2.02e-136 -0.549873 0.067174 ( 0.023187) 0.617047 ( 0.009907) 0.067702 0.616685 --->plink-------germline1: 3.96e-18 0.607954 1.64e-145 0.607155 0.629865 ( 0.021264) 0.022710 ( 0.002500) 0.631748 0.023061 --->plink-------germline2: 3.96e-18 0.611081 3.45e-145 0.610364 0.629865 ( 0.021264) 0.019501 ( 0.003556) 0.631748 0.019439 --->plink-------dash-----: 2.53e-06 0.012811 4.74e-07 0.012818 0.629865 ( 0.021264) 0.617047 ( 0.009907) 0.631748 0.616685 --->germline1---germline2: 3.14e-16 0.003115 2.72e-22 0.003209 0.022710 ( 0.002500) 0.019501 ( 0.003556) 0.023061 0.019439 --->germline1---dash-----: 3.96e-18 -0.594316 3.69e-178 -0.594337 0.022710 ( 0.002500) 0.617047 ( 0.009907) 0.023061 0.616685 --->germline2---dash-----: 3.96e-18 -0.597621 8.12e-178 -0.597546 0.019501 ( 0.003556) 0.617047 ( 0.009907) 0.019439 0.616685 ######accuracy###### --->fabia-------beagle1--: 3.96e-18 0.057863 9.48e-67 0.058203 0.996027 ( 0.000616) 0.937823 ( 0.013236) 0.996047 0.938325 --->fabia-------beagle2--: 3.96e-18 0.018029 5.88e-62 0.018474 0.996027 ( 0.000616) 0.977552 ( 0.004756) 0.996047 0.978522 --->fabia-------plink----: 3.96e-18 0.012175 1.45e-86 0.012257 0.996027 ( 0.000616) 0.983769 ( 0.001615) 0.996047 0.983943 --->fabia-------germline1: 3.96e-18 0.384536 2.5e-164 0.384758 0.996027 ( 0.000616) 0.611268 ( 0.008758) 0.996047 0.612257 --->fabia-------germline2: 3.96e-18 0.229330 3.16e-141 0.229173 0.996027 ( 0.000616) 0.766854 ( 0.008926) 0.996047 0.766796 --->fabia-------dash-----: 3.96e-18 0.618134 1.2e-178 0.618205 0.996027 ( 0.000616) 0.377822 ( 0.010203) 0.996047 0.378474 --->beagle1-----beagle2--: 3.96e-18 -0.039299 2.37e-54 -0.039729 0.937823 ( 0.013236) 0.977552 ( 0.004756) 0.938325 0.978522 --->beagle1-----plink----: 3.96e-18 -0.045705 5.66e-57 -0.045946 0.937823 ( 0.013236) 0.983769 ( 0.001615) 0.938325 0.983943 --->beagle1-----germline1: 3.96e-18 0.327034 1.96e-134 0.326555 0.937823 ( 0.013236) 0.611268 ( 0.008758) 0.938325 0.612257 --->beagle1-----germline2: 3.96e-18 0.171671 7.69e-106 0.170970 0.937823 ( 0.013236) 0.766854 ( 0.008926) 0.938325 0.766796 --->beagle1-----dash-----: 3.96e-18 0.560940 2.7e-154 0.560002 0.937823 ( 0.013236) 0.377822 ( 0.010203) 0.938325 0.378474 --->beagle2-----plink----: 1.12e-16 -0.005807 8.66e-22 -0.006217 0.977552 ( 0.004756) 0.983769 ( 0.001615) 0.978522 0.983943 --->beagle2-----germline1: 3.96e-18 0.366140 2.04e-159 0.366284 0.977552 ( 0.004756) 0.611268 ( 0.008758) 0.978522 0.612257 --->beagle2-----germline2: 3.96e-18 0.210770 1.34e-134 0.210699 0.977552 ( 0.004756) 0.766854 ( 0.008926) 0.978522 0.766796 --->beagle2-----dash-----: 3.96e-18 0.599678 8.66e-173 0.599731 0.977552 ( 0.004756) 0.377822 ( 0.010203) 0.978522 0.378474 --->plink-------germline1: 3.96e-18 0.372260 8.62e-162 0.372501 0.983769 ( 0.001615) 0.611268 ( 0.008758) 0.983943 0.612257 --->plink-------germline2: 3.96e-18 0.217115 1.05e-137 0.216916 0.983769 ( 0.001615) 0.766854 ( 0.008926) 0.983943 0.766796 --->plink-------dash-----: 3.96e-18 0.605930 2.37e-177 0.605948 0.983769 ( 0.001615) 0.377822 ( 0.010203) 0.983943 0.378474 --->germline1---germline2: 3.96e-18 -0.155305 8.98e-144 -0.155585 0.611268 ( 0.008758) 0.766854 ( 0.008926) 0.612257 0.766796 --->germline1---dash-----: 3.96e-18 0.233578 7.31e-112 0.233447 0.611268 ( 0.008758) 0.377822 ( 0.010203) 0.612257 0.378474 --->germline2---dash-----: 3.96e-18 0.389027 3.19e-135 0.389032 0.766854 ( 0.008926) 0.377822 ( 0.010203) 0.766796 0.378474 ######FPR###### --->fabia-------beagle1--: 3.96e-18 -0.050455 2.44e-59 -0.050751 0.000771 ( 0.000643) 0.051522 ( 0.013907) 0.000622 0.051100 --->fabia-------beagle2--: 4.08e-18 -0.007978 8.66e-30 -0.008407 0.000771 ( 0.000643) 0.009178 ( 0.005162) 0.000622 0.008123 --->fabia-------plink----: 3.96e-18 -0.015146 4.44e-94 -0.015207 0.000771 ( 0.000643) 0.015978 ( 0.001698) 0.000622 0.015751 --->fabia-------germline1: 3.96e-18 -0.383444 1.99e-163 -0.383709 0.000771 ( 0.000643) 0.384480 ( 0.008917) 0.000622 0.383561 --->fabia-------germline2: 3.96e-18 -0.223817 2.26e-139 -0.223645 0.000771 ( 0.000643) 0.224416 ( 0.009091) 0.000622 0.224484 --->fabia-------dash-----: 3.96e-18 -0.989337 1.14e-281 -0.989316 0.000771 ( 0.000643) 0.990087 ( 0.001298) 0.000622 0.990364 --->beagle1-----beagle2--: 3.96e-18 0.041875 5.07e-55 0.042343 0.051522 ( 0.013907) 0.009178 ( 0.005162) 0.051100 0.008123 --->beagle1-----plink----: 3.96e-18 0.035300 4.19e-45 0.035544 0.051522 ( 0.013907) 0.015978 ( 0.001698) 0.051100 0.015751 --->beagle1-----germline1: 3.96e-18 -0.333399 1.14e-133 -0.332958 0.051522 ( 0.013907) 0.384480 ( 0.008917) 0.051100 0.383561 --->beagle1-----germline2: 3.96e-18 -0.173554 1.33e-104 -0.172894 0.051522 ( 0.013907) 0.224416 ( 0.009091) 0.051100 0.224484 --->beagle1-----dash-----: 3.96e-18 -0.938966 4.16e-183 -0.938566 0.051522 ( 0.013907) 0.990087 ( 0.001298) 0.051100 0.990364 --->beagle2-----plink----: 6.55e-15 -0.007182 4.28e-22 -0.006799 0.009178 ( 0.005162) 0.015978 ( 0.001698) 0.008123 0.015751 --->beagle2-----germline1: 3.96e-18 -0.375139 3.19e-159 -0.375301 0.009178 ( 0.005162) 0.384480 ( 0.008917) 0.008123 0.383561 --->beagle2-----germline2: 3.96e-18 -0.215282 2.37e-134 -0.215237 0.009178 ( 0.005162) 0.224416 ( 0.009091) 0.008123 0.224484 --->beagle2-----dash-----: 3.96e-18 -0.981345 3.61e-225 -0.980909 0.009178 ( 0.005162) 0.990087 ( 0.001298) 0.008123 0.990364 --->plink-------germline1: 3.96e-18 -0.368255 1.86e-160 -0.368502 0.015978 ( 0.001698) 0.384480 ( 0.008917) 0.015751 0.383561 --->plink-------germline2: 3.96e-18 -0.208662 3.68e-135 -0.208438 0.015978 ( 0.001698) 0.224416 ( 0.009091) 0.015751 0.224484 --->plink-------dash-----: 3.96e-18 -0.974260 2.69e-261 -0.974110 0.015978 ( 0.001698) 0.990087 ( 0.001298) 0.015751 0.990364 --->germline1---germline2: 3.96e-18 0.159761 7.13e-144 0.160064 0.384480 ( 0.008917) 0.224416 ( 0.009091) 0.383561 0.224484 --->germline1---dash-----: 3.96e-18 -0.605809 6.01e-183 -0.605608 0.384480 ( 0.008917) 0.990087 ( 0.001298) 0.383561 0.990364 --->germline2---dash-----: 3.96e-18 -0.765574 6.23e-193 -0.765672 0.224416 ( 0.009091) 0.990087 ( 0.001298) 0.224484 0.990364 ######FDR###### --->fabia-------beagle1--: 3.96e-18 -0.807056 7.43e-93 -0.804041 0.141499 ( 0.097691) 0.945541 ( 0.012125) 0.140700 0.946500 --->fabia-------beagle2--: 3.96e-18 -0.764547 2.45e-88 -0.764985 0.141499 ( 0.097691) 0.906485 ( 0.032943) 0.140700 0.910903 --->fabia-------plink----: 3.96e-18 -0.394107 3.03e-62 -0.390808 0.141499 ( 0.097691) 0.532308 ( 0.023658) 0.140700 0.531775 --->fabia-------germline1: 3.96e-18 -0.849922 3.64e-95 -0.846723 0.141499 ( 0.097691) 0.988223 ( 0.001297) 0.140700 0.988046 --->fabia-------germline2: 3.96e-18 -0.851340 2.89e-95 -0.848127 0.141499 ( 0.097691) 0.989626 ( 0.001896) 0.140700 0.989677 --->fabia-------dash-----: 3.96e-18 -0.483410 1.29e-71 -0.480679 0.141499 ( 0.097691) 0.622178 ( 0.010203) 0.140700 0.621526 --->beagle1-----beagle2--: 6.83e-17 0.035671 9.35e-20 0.039056 0.945541 ( 0.012125) 0.906485 ( 0.032943) 0.946500 0.910903 --->beagle1-----plink----: 3.96e-18 0.414322 2.18e-120 0.413233 0.945541 ( 0.012125) 0.532308 ( 0.023658) 0.946500 0.531775 --->beagle1-----germline1: 3.96e-18 -0.042175 6.92e-58 -0.042682 0.945541 ( 0.012125) 0.988223 ( 0.001297) 0.946500 0.988046 --->beagle1-----germline2: 3.96e-18 -0.043509 8.24e-60 -0.044086 0.945541 ( 0.012125) 0.989626 ( 0.001896) 0.946500 0.989677 --->beagle1-----dash-----: 3.96e-18 0.323409 1.46e-133 0.323362 0.945541 ( 0.012125) 0.622178 ( 0.010203) 0.946500 0.621526 --->beagle2-----plink----: 3.96e-18 0.376338 1.74e-96 0.374177 0.906485 ( 0.032943) 0.532308 ( 0.023658) 0.910903 0.531775 --->beagle2-----germline1: 3.96e-18 -0.078616 2.25e-44 -0.081738 0.906485 ( 0.032943) 0.988223 ( 0.001297) 0.910903 0.988046 --->beagle2-----germline2: 3.96e-18 -0.080094 7.56e-45 -0.083141 0.906485 ( 0.032943) 0.989626 ( 0.001896) 0.910903 0.989677 --->beagle2-----dash-----: 3.96e-18 0.286784 2.82e-92 0.284306 0.906485 ( 0.032943) 0.622178 ( 0.010203) 0.910903 0.621526 --->plink-------germline1: 3.96e-18 -0.456891 4.72e-129 -0.455915 0.532308 ( 0.023658) 0.988223 ( 0.001297) 0.531775 0.988046 --->plink-------germline2: 3.96e-18 -0.458042 6.5e-129 -0.457319 0.532308 ( 0.023658) 0.989626 ( 0.001896) 0.531775 0.989677 --->plink-------dash-----: 3.96e-18 -0.090929 6.57e-58 -0.089871 0.532308 ( 0.023658) 0.622178 ( 0.010203) 0.531775 0.621526 --->germline1---germline2: 5.42e-14 -0.001346 1.83e-17 -0.001403 0.988223 ( 0.001297) 0.989626 ( 0.001896) 0.988046 0.989677 --->germline1---dash-----: 3.96e-18 0.366141 4.36e-155 0.366044 0.988223 ( 0.001297) 0.622178 ( 0.010203) 0.988046 0.621526 --->germline2---dash-----: 3.96e-18 0.367498 1.89e-154 0.367448 0.989626 ( 0.001896) 0.622178 ( 0.010203) 0.989677 0.621526 ######specifity###### --->fabia-------beagle1--: 3.96e-18 0.050419 2.44e-59 0.050751 0.999229 ( 0.000643) 0.948478 ( 0.013907) 0.999378 0.948900 --->fabia-------beagle2--: 4.08e-18 0.007990 8.66e-30 0.008407 0.999229 ( 0.000643) 0.990822 ( 0.005162) 0.999378 0.991877 --->fabia-------plink----: 3.96e-18 0.015142 4.44e-94 0.015207 0.999229 ( 0.000643) 0.984022 ( 0.001698) 0.999378 0.984249 --->fabia-------germline1: 3.96e-18 0.383445 1.99e-163 0.383709 0.999229 ( 0.000643) 0.615520 ( 0.008917) 0.999378 0.616439 --->fabia-------germline2: 3.96e-18 0.223812 2.26e-139 0.223645 0.999229 ( 0.000643) 0.775584 ( 0.009091) 0.999378 0.775516 --->fabia-------dash-----: 3.96e-18 0.739707 6.77e-132 0.737268 0.999229 ( 0.000643) 0.261961 ( 0.035982) 0.999378 0.256834 --->beagle1-----beagle2--: 3.96e-18 -0.041872 5.07e-55 -0.042343 0.948478 ( 0.013907) 0.990822 ( 0.005162) 0.948900 0.991877 --->beagle1-----plink----: 3.96e-18 -0.035266 4.19e-45 -0.035544 0.948478 ( 0.013907) 0.984022 ( 0.001698) 0.948900 0.984249 --->beagle1-----germline1: 3.96e-18 0.333401 1.14e-133 0.332958 0.948478 ( 0.013907) 0.615520 ( 0.008917) 0.948900 0.616439 --->beagle1-----germline2: 3.96e-18 0.173555 1.33e-104 0.172894 0.948478 ( 0.013907) 0.775584 ( 0.009091) 0.948900 0.775516 --->beagle1-----dash-----: 3.96e-18 0.687055 8.05e-127 0.686517 0.948478 ( 0.013907) 0.261961 ( 0.035982) 0.948900 0.256834 --->beagle2-----plink----: 6.55e-15 0.007205 4.28e-22 0.006799 0.990822 ( 0.005162) 0.984022 ( 0.001698) 0.991877 0.984249 --->beagle2-----germline1: 3.96e-18 0.375142 3.19e-159 0.375301 0.990822 ( 0.005162) 0.615520 ( 0.008917) 0.991877 0.616439 --->beagle2-----germline2: 3.96e-18 0.215286 2.37e-134 0.215237 0.990822 ( 0.005162) 0.775584 ( 0.009091) 0.991877 0.775516 --->beagle2-----dash-----: 3.96e-18 0.731301 3.12e-130 0.728860 0.990822 ( 0.005162) 0.261961 ( 0.035982) 0.991877 0.256834 --->plink-------germline1: 3.96e-18 0.368257 1.86e-160 0.368502 0.984022 ( 0.001698) 0.615520 ( 0.008917) 0.984249 0.616439 --->plink-------germline2: 3.96e-18 0.208672 3.68e-135 0.208438 0.984022 ( 0.001698) 0.775584 ( 0.009091) 0.984249 0.775516 --->plink-------dash-----: 3.96e-18 0.724892 1.14e-130 0.722061 0.984022 ( 0.001698) 0.261961 ( 0.035982) 0.984249 0.256834 --->germline1---germline2: 3.96e-18 -0.159765 7.13e-144 -0.160064 0.615520 ( 0.008917) 0.775584 ( 0.009091) 0.616439 0.775516 --->germline1---dash-----: 3.96e-18 0.354835 1.63e-97 0.353559 0.615520 ( 0.008917) 0.261961 ( 0.035982) 0.616439 0.256834 --->germline2---dash-----: 3.96e-18 0.514907 1.05e-114 0.513623 0.775584 ( 0.009091) 0.261961 ( 0.035982) 0.775516 0.256834 ######sensitivity###### --->fabia-------beagle1--: 3.96e-18 0.362961 8.1e-62 0.358786 0.559178 ( 0.078691) 0.200392 ( 0.053730) 0.563573 0.192930 --->fabia-------beagle2--: 3.96e-18 0.503912 2.68e-79 0.499904 0.559178 ( 0.078691) 0.059274 ( 0.028606) 0.563573 0.057205 --->fabia-------plink----: 3.96e-18 -0.403857 2.17e-73 -0.407035 0.559178 ( 0.078691) 0.966213 ( 0.015166) 0.563573 0.966510 --->fabia-------germline1: 3.96e-18 0.243478 1.14e-51 0.242050 0.559178 ( 0.078691) 0.317128 ( 0.035460) 0.563573 0.319613 --->fabia-------germline2: 3.96e-18 0.397544 7e-72 0.396512 0.559178 ( 0.078691) 0.162666 ( 0.029563) 0.563573 0.164728 --->fabia-------dash-----: 3.96e-18 -613213 7.93e-179 -613316 0.559 ( 0.0787) 613316 ( 10046) 0.564 612608 --->beagle1-----beagle2--: 3.96e-18 0.139843 2.74e-53 0.141118 0.200392 ( 0.053730) 0.059274 ( 0.028606) 0.192930 0.057205 --->beagle1-----plink----: 3.96e-18 -0.767071 1.53e-114 -0.765821 0.200392 ( 0.053730) 0.966213 ( 0.015166) 0.192930 0.966510 --->beagle1-----germline1: 7.22e-18 -0.117615 1.27e-35 -0.116736 0.200392 ( 0.053730) 0.317128 ( 0.035460) 0.192930 0.319613 --->beagle1-----germline2: 5.5e-08 0.036710 3.1e-09 0.037726 0.200392 ( 0.053730) 0.162666 ( 0.029563) 0.192930 0.164728 --->beagle1-----dash-----: 3.96e-18 -613216 7.93e-179 -613316 0.2 ( 0.0537) 613316 ( 10046) 0.193 612608 --->beagle2-----plink----: 3.96e-18 -0.907760 3.32e-148 -0.906939 0.059274 ( 0.028606) 0.966213 ( 0.015166) 0.057205 0.966510 --->beagle2-----germline1: 3.96e-18 -0.258653 6.9e-83 -0.257854 0.059274 ( 0.028606) 0.317128 ( 0.035460) 0.057205 0.319613 --->beagle2-----germline2: 3.96e-18 -0.103831 3e-50 -0.103392 0.059274 ( 0.028606) 0.162666 ( 0.029563) 0.057205 0.164728 --->beagle2-----dash-----: 3.96e-18 -613213 7.92e-179 -613316 0.0593 ( 0.0286) 613316 ( 10046) 0.0572 612608 --->plink-------germline1: 3.96e-18 0.649405 1.1e-123 0.649085 0.966213 ( 0.015166) 0.317128 ( 0.035460) 0.966510 0.319613 --->plink-------germline2: 3.96e-18 0.803091 1.96e-141 0.803547 0.966213 ( 0.015166) 0.162666 ( 0.029563) 0.966510 0.164728 --->plink-------dash-----: 3.96e-18 -613212 7.93e-179 -613315 0.966 ( 0.0152) 613316 ( 10046) 0.967 612608 --->germline1---germline2: 3.96e-18 0.153596 3.19e-78 0.154462 0.317128 ( 0.035460) 0.162666 ( 0.029563) 0.319613 0.164728 --->germline1---dash-----: 3.96e-18 -613213 7.93e-179 -613316 0.317 ( 0.0355) 613316 ( 10046) 0.32 612608 --->germline2---dash-----: 3.96e-18 -613216 7.93e-179 -613316 0.163 ( 0.0296) 613316 ( 10046) 0.165 612608 ######trueN###### --->fabia-------beagle1--: 3.96e-18 1048618 1.33e-188 1048944 1983913 ( 1289) 934969 ( 13734) 1984093 935518 --->fabia-------beagle2--: 3.96e-18 1006857 5.85e-229 1007205 1983913 ( 1289) 976709 ( 5070) 1984093 977703 --->fabia-------plink----: 3.96e-18 1013929 3.33e-267 1013907 1983913 ( 1289) 970006 ( 1760) 1984093 970328 --->fabia-------germline1: 3.96e-18 1376974 2e-218 1377161 1983913 ( 1289) 606753 ( 8772) 1984093 607754 --->fabia-------germline2: 3.96e-18 1219527 2.52e-212 1219377 1983913 ( 1289) 764537 ( 8933) 1984093 764683 --->fabia-------dash-----: 3.96e-18 1611368 1.58e-220 1611473 1983913 ( 1289) 372440 ( 10065) 1984093 373044 --->beagle1-----beagle2--: 3.96e-18 -41286 5.03e-55 -41740 934969 ( 13734) 976709 ( 5070) 935518 977703 --->beagle1-----plink----: 3.96e-18 -34786 4.18e-45 -35037 934969 ( 13734) 970006 ( 1760) 935518 970328 --->beagle1-----germline1: 3.96e-18 328664 1.24e-133 328216 934969 ( 13734) 606753 ( 8772) 935518 607754 --->beagle1-----germline2: 3.96e-18 171074 1.39e-104 170432 934969 ( 13734) 764537 ( 8933) 935518 764683 --->beagle1-----dash-----: 3.96e-18 563393 1.28e-153 562529 934969 ( 13734) 372440 ( 10065) 935518 373044 --->beagle2-----plink----: 6.55e-15 7105 4.27e-22 6702 976709 ( 5070) 970006 ( 1760) 977703 970328 --->beagle2-----germline1: 3.96e-18 369817 3.41e-159 369956 976709 ( 5070) 606753 ( 8772) 977703 607754 --->beagle2-----germline2: 3.96e-18 212231 2.48e-134 212172 976709 ( 5070) 764537 ( 8933) 977703 764683 --->beagle2-----dash-----: 3.96e-18 604253 4.22e-173 604269 976709 ( 5070) 372440 ( 10065) 977703 373044 --->plink-------germline1: 3.96e-18 363024 2.22e-160 363254 970006 ( 1760) 606753 ( 8772) 970328 607754 --->plink-------germline2: 3.96e-18 205692 4.07e-135 205469 970006 ( 1760) 764537 ( 8933) 970328 764683 --->plink-------dash-----: 3.96e-18 597553 2.4e-177 597566 970006 ( 1760) 372440 ( 10065) 970328 373044 --->germline1---germline2: 3.96e-18 -157486 6.89e-144 -157784 606753 ( 8772) 764537 ( 8933) 607754 764683 --->germline1---dash-----: 3.96e-18 234406 2.89e-112 234313 606753 ( 8772) 372440 ( 10065) 607754 373044 --->germline2---dash-----: 3.96e-18 392140 7.69e-136 392097 764537 ( 8933) 372440 ( 10065) 764683 373044 ######falseP###### --->fabia-------beagle1--: 3.96e-18 -48926 9.5e-59 -49257 1530 ( 1276) 50787 ( 13707) 1236 50380 --->fabia-------beagle2--: 7.67e-18 -7178 2.29e-26 -7517 1530 ( 1276) 9048 ( 5089) 1236 8006 --->fabia-------plink----: 3.96e-18 -14236 3.47e-85 -14220 1530 ( 1276) 15750 ( 1673) 1236 15528 --->fabia-------germline1: 3.96e-18 -377277 1.06e-162 -377473 1530 ( 1276) 379004 ( 8802) 1236 378138 --->fabia-------germline2: 3.96e-18 -219853 1.41e-138 -219689 1530 ( 1276) 221219 ( 8969) 1236 221348 --->fabia-------dash-----: 3.96e-18 -9072 2.02e-82 -8982 1530 ( 1276) 10513 ( 543) 1236 10618 --->beagle1-----beagle2--: 3.96e-18 41282 5.03e-55 41740 50787 ( 13707) 9048 ( 5089) 50380 8006 --->beagle1-----plink----: 3.96e-18 34786 4.18e-45 35037 50787 ( 13707) 15750 ( 1673) 50380 15528 --->beagle1-----germline1: 3.96e-18 -328665 1.24e-133 -328216 50787 ( 13707) 379004 ( 8802) 50380 378138 --->beagle1-----germline2: 3.96e-18 -171072 1.39e-104 -170432 50787 ( 13707) 221219 ( 8969) 50380 221348 --->beagle1-----dash-----: 3.96e-18 39915 8.39e-51 40275 50787 ( 13707) 10513 ( 543) 50380 10618 --->beagle2-----plink----: 6.55e-15 -7105 4.27e-22 -6702 9048 ( 5089) 15750 ( 1673) 8006 15528 --->beagle2-----germline1: 3.96e-18 -369818 3.41e-159 -369956 9048 ( 5089) 379004 ( 8802) 8006 378138 --->beagle2-----germline2: 3.96e-18 -212231 2.48e-134 -212172 9048 ( 5089) 221219 ( 8969) 8006 221348 --->beagle2-----dash-----: 1.22e-03 -1948 5.85e-03 -1465 9048 ( 5089) 10513 ( 543) 8006 10618 --->plink-------germline1: 3.96e-18 -363024 2.22e-160 -363254 15750 ( 1673) 379004 ( 8802) 15528 378138 --->plink-------germline2: 3.96e-18 -205694 4.07e-135 -205469 15750 ( 1673) 221219 ( 8969) 15528 221348 --->plink-------dash-----: 3.96e-18 5127 1.11e-50 5237 15750 ( 1673) 10513 ( 543) 15528 10618 --->germline1---germline2: 3.96e-18 157486 6.89e-144 157784 379004 ( 8802) 221219 ( 8969) 378138 221348 --->germline1---dash-----: 3.96e-18 368227 5.69e-162 368491 379004 ( 8802) 10513 ( 543) 378138 10618 --->germline2---dash-----: 3.96e-18 210850 1.75e-137 210707 221219 ( 8969) 10513 ( 543) 221348 10618 ######falseN###### --->fabia-------beagle1--: 3.96e-18 -5036 5.03e-60 -4973 6416 ( 1146) 11389 ( 787) 6324 11408 --->fabia-------beagle2--: 3.96e-18 -7038 2.54e-77 -6984 6416 ( 1146) 13400 ( 474) 6324 13404 --->fabia-------plink----: 3.96e-18 5890 2.28e-73 5936 6416 ( 1146) 481 ( 216) 6324 481 --->fabia-------germline1: 3.96e-18 -3330 4.63e-49 -3312 6416 ( 1146) 9728 ( 551) 6324 9712 --->fabia-------germline2: 3.96e-18 -5524 8.53e-70 -5511 6416 ( 1146) 11927 ( 466) 6324 11936 --->fabia-------dash-----: 4.08e-18 2649 3.22e-37 2686 6416 ( 1146) 3731 ( 513) 6324 3670 --->beagle1-----beagle2--: 3.96e-18 -1986 5.94e-53 -2011 11389 ( 787) 13400 ( 474) 11408 13404 --->beagle1-----plink----: 3.96e-18 10908 2.71e-113 10908 11389 ( 787) 481 ( 216) 11408 481 --->beagle1-----germline1: 7.67e-18 1672 1.74e-35 1661 11389 ( 787) 9728 ( 551) 11408 9712 --->beagle1-----germline2: 5.72e-08 -522 3.27e-09 -538 11389 ( 787) 11927 ( 466) 11408 11936 --->beagle1-----dash-----: 3.95e-18 7655 3.37e-92 7658 11389 ( 787) 3731 ( 513) 11408 3670 --->beagle2-----plink----: 3.96e-18 12929 6.52e-142 12919 13400 ( 474) 481 ( 216) 13404 481 --->beagle2-----germline1: 3.96e-18 3685 6.28e-83 3672 13400 ( 474) 9728 ( 551) 13404 9712 --->beagle2-----germline2: 3.96e-18 1479 3e-50 1473 13400 ( 474) 11927 ( 466) 13404 11936 --->beagle2-----dash-----: 3.96e-18 9704 9.17e-112 9669 13400 ( 474) 3731 ( 513) 13404 3670 --->plink-------germline1: 3.96e-18 -9250 2.17e-120 -9247 481 ( 216) 9728 ( 551) 481 9712 --->plink-------germline2: 3.96e-18 -11446 4.33e-137 -11446 481 ( 216) 11927 ( 466) 481 11936 --->plink-------dash-----: 3.96e-18 -3222 8.14e-78 -3250 481 ( 216) 3731 ( 513) 481 3670 --->germline1---germline2: 3.96e-18 -2191 8.66e-79 -2199 9728 ( 551) 11927 ( 466) 9712 11936 --->germline1---dash-----: 3.96e-18 6010 2.61e-81 5997 9728 ( 551) 3731 ( 513) 9712 3670 --->germline2---dash-----: 3.96e-18 8230 2.79e-100 8196 11927 ( 466) 3731 ( 513) 11936 3670 ######trueP###### --->fabia-------beagle1--: 3.96e-18 5341 2.72e-62 5285 8140 ( 1150) 2854 ( 770) 8234 2742 --->fabia-------beagle2--: 3.96e-18 7355 2.45e-79 7296 8140 ( 1150) 844 ( 407) 8234 813 --->fabia-------plink----: 3.96e-18 -5578 2.3e-70 -5623 8140 ( 1150) 13763 ( 311) 8234 13790 --->fabia-------germline1: 3.96e-18 3642 1.01e-52 3624 8140 ( 1150) 4516 ( 498) 8234 4531 --->fabia-------germline2: 3.96e-18 5839 3.65e-72 5823 8140 ( 1150) 2317 ( 420) 8234 2338 --->fabia-------dash-----: 3.96e-18 8167 1.37e-86 8140 8140 ( 1150) 0.000784 ( 0.00448) 8234 0 --->beagle1-----beagle2--: 3.96e-18 1986 5.94e-53 2011 2854 ( 770) 844 ( 407) 2742 813 --->beagle1-----plink----: 3.96e-18 -10908 2.71e-113 -10908 2854 ( 770) 13763 ( 311) 2742 13790 --->beagle1-----germline1: 7.67e-18 -1672 1.74e-35 -1661 2854 ( 770) 4516 ( 498) 2742 4531 --->beagle1-----germline2: 5.72e-08 522 3.27e-09 538 2854 ( 770) 2317 ( 420) 2742 2338 --->beagle1-----dash-----: 3.96e-18 2830 7.36e-60 2854 2854 ( 770) 0.000784 ( 0.00448) 2742 0 --->beagle2-----plink----: 3.96e-18 -12929 6.52e-142 -12919 844 ( 407) 13763 ( 311) 813 13790 --->beagle2-----germline1: 3.96e-18 -3685 6.28e-83 -3672 844 ( 407) 4516 ( 498) 813 4531 --->beagle2-----germline2: 3.96e-18 -1479 3e-50 -1473 844 ( 407) 2317 ( 420) 813 2338 --->beagle2-----dash-----: 3.96e-18 824 7.87e-38 844 844 ( 407) 0.000784 ( 0.00448) 813 0 --->plink-------germline1: 3.96e-18 9250 2.17e-120 9247 13763 ( 311) 4516 ( 498) 13790 4531 --->plink-------germline2: 3.96e-18 11446 4.33e-137 11446 13763 ( 311) 2317 ( 420) 13790 2338 --->plink-------dash-----: 3.96e-18 13778 6.26e-165 13763 13763 ( 311) 0.000784 ( 0.00448) 13790 0 --->germline1---germline2: 3.96e-18 2191 8.66e-79 2199 4516 ( 498) 2317 ( 420) 4531 2338 --->germline1---dash-----: 3.95e-18 4516 4.33e-97 4516 4516 ( 498) 0.000784 ( 0.00448) 4531 0 --->germline2---dash-----: 3.96e-18 2309 4.2e-76 2317 2317 ( 420) 0.000784 ( 0.00448) 2338 0 ######MatthewsSnps###### --->fabia-------beagle1--: 3.96e-18 0.560734 1.33e-76 0.560328 0.621645 ( 0.060317) 0.061317 ( 0.072830) 0.636097 0.070173 --->fabia-------beagle2--: 3.96e-18 0.528369 6.85e-65 0.525732 0.621645 ( 0.060317) 0.095913 ( 0.105705) 0.636097 0.092915 --->fabia-------plink----: 1.19e-13 0.073423 1.69e-17 0.072668 0.621645 ( 0.060317) 0.548977 ( 0.042500) 0.636097 0.546811 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.621645 ( 0.060317) 0.000000 ( 0.000000) 0.636097 0.000000 --->fabia-------germline2: 3.96e-18 0.623598 4.44e-102 0.621310 0.621645 ( 0.060317) 0.000335 ( 0.013409) 0.636097 0.000000 --->fabia-------dash-----: 3.96e-18 0.313031 3.76e-71 0.311586 0.621645 ( 0.060317) 0.310059 ( 0.012728) 0.636097 0.312022 --->beagle1-----beagle2--: 7.36e-03 -0.031550 2.46e-03 -0.034596 0.061317 ( 0.072830) 0.095913 ( 0.105705) 0.070173 0.092915 --->beagle1-----plink----: 3.96e-18 -0.483653 6.3e-80 -0.487660 0.061317 ( 0.072830) 0.548977 ( 0.042500) 0.070173 0.546811 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.061317 ( 0.072830) 0.000000 ( 0.000000) 0.070173 0.000000 --->beagle1-----germline2: 4.73e-11 0.068236 2.08e-13 0.060982 0.061317 ( 0.072830) 0.000335 ( 0.013409) 0.070173 0.000000 --->beagle1-----dash-----: 3.96e-18 -0.246679 9.21e-56 -0.248742 0.061317 ( 0.072830) 0.310059 ( 0.012728) 0.070173 0.312022 --->beagle2-----plink----: 3.96e-18 -0.450986 4.24e-62 -0.453064 0.095913 ( 0.105705) 0.548977 ( 0.042500) 0.092915 0.546811 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.095913 ( 0.105705) 0.000000 ( 0.000000) 0.092915 0.000000 --->beagle2-----germline2: 3.73e-12 0.094672 1.14e-14 0.095578 0.095913 ( 0.105705) 0.000335 ( 0.013409) 0.092915 0.000000 --->beagle2-----dash-----: 6.22e-18 -0.215808 2.42e-36 -0.214146 0.095913 ( 0.105705) 0.310059 ( 0.012728) 0.092915 0.312022 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.548977 ( 0.042500) 0.000000 ( 0.000000) 0.546811 0.000000 --->plink-------germline2: 3.96e-18 0.548568 2.19e-111 0.548642 0.548977 ( 0.042500) 0.000335 ( 0.013409) 0.546811 0.000000 --->plink-------dash-----: 3.96e-18 0.238650 2.93e-73 0.238918 0.548977 ( 0.042500) 0.310059 ( 0.012728) 0.546811 0.312022 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000335 ( 0.013409) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.310059 ( 0.012728) 0.000000 0.312022 --->germline2---dash-----: 3.95e-18 -0.309863 1.46e-121 -0.309724 0.000335 ( 0.013409) 0.310059 ( 0.012728) 0.000000 0.312022 ######F1Snps###### --->fabia-------beagle1--: 3.96e-18 0.336250 1.23e-72 0.334310 0.652285 ( 0.057990) 0.317975 ( 0.021782) 0.657992 0.319293 --->fabia-------beagle2--: 3.96e-18 0.356321 1.88e-54 0.358289 0.652285 ( 0.057990) 0.293996 ( 0.086044) 0.657992 0.307774 --->fabia-------plink----: 4.51e-10 0.051608 1.42e-11 0.050698 0.652285 ( 0.057990) 0.601587 ( 0.036699) 0.657992 0.600701 --->fabia-------germline1: 3.96e-18 0.345522 2.37e-76 0.342249 0.652285 ( 0.057990) 0.310035 ( 0.012723) 0.657992 0.312022 --->fabia-------germline2: 3.96e-18 0.345522 1.99e-76 0.342276 0.652285 ( 0.057990) 0.310008 ( 0.012677) 0.657992 0.311239 --->fabia-------dash-----: 3.96e-18 0.472009 1.7e-90 0.468672 0.652285 ( 0.057990) 0.183613 ( 0.008910) 0.657992 0.184850 --->beagle1-----beagle2--: 1.66e-02 0.020029 5.12e-03 0.023979 0.317975 ( 0.021782) 0.293996 ( 0.086044) 0.319293 0.307774 --->beagle1-----plink----: 3.96e-18 -0.283116 9.58e-86 -0.283612 0.317975 ( 0.021782) 0.601587 ( 0.036699) 0.319293 0.600701 --->beagle1-----germline1: 4.69e-06 0.008151 4.51e-05 0.007939 0.317975 ( 0.021782) 0.310035 ( 0.012723) 0.319293 0.312022 --->beagle1-----germline2: 3.43e-06 0.008187 3.93e-05 0.007966 0.317975 ( 0.021782) 0.310008 ( 0.012677) 0.319293 0.311239 --->beagle1-----dash-----: 3.96e-18 0.134363 3.41e-87 0.134362 0.317975 ( 0.021782) 0.183613 ( 0.008910) 0.319293 0.184850 --->beagle2-----plink----: 3.96e-18 -0.302448 1.16e-54 -0.307591 0.293996 ( 0.086044) 0.601587 ( 0.036699) 0.307774 0.600701 --->beagle2-----germline1: 1.48e-01 -0.011170 6.89e-02 -0.016040 0.293996 ( 0.086044) 0.310035 ( 0.012723) 0.307774 0.312022 --->beagle2-----germline2: 1.52e-01 -0.011231 6.94e-02 -0.016013 0.293996 ( 0.086044) 0.310008 ( 0.012677) 0.307774 0.311239 --->beagle2-----dash-----: 4.47e-15 0.115351 1.45e-22 0.110383 0.293996 ( 0.086044) 0.183613 ( 0.008910) 0.307774 0.184850 --->plink-------germline1: 3.96e-18 0.290965 6.2e-89 0.291551 0.601587 ( 0.036699) 0.310035 ( 0.012723) 0.600701 0.312022 --->plink-------germline2: 3.96e-18 0.290969 4.99e-89 0.291578 0.601587 ( 0.036699) 0.310008 ( 0.012677) 0.600701 0.311239 --->plink-------dash-----: 3.96e-18 0.417440 2.07e-105 0.417974 0.601587 ( 0.036699) 0.183613 ( 0.008910) 0.600701 0.184850 --->germline1---germline2: 2.72e-01 -0.000593 1e+00 0.000000 0.310035 ( 0.012723) 0.310008 ( 0.012677) 0.312022 0.311239 --->germline1---dash-----: 3.95e-18 0.126636 4.88e-152 0.126422 0.310035 ( 0.012723) 0.183613 ( 0.008910) 0.312022 0.184850 --->germline2---dash-----: 3.95e-18 0.126570 7.07e-152 0.126395 0.310008 ( 0.012677) 0.183613 ( 0.008910) 0.311239 0.184850 ######accuracySnps###### --->fabia-------beagle1--: 3.95e-18 0.632307 1.6e-96 0.626358 0.895610 ( 0.017201) 0.269252 ( 0.067025) 0.897650 0.254300 --->fabia-------beagle2--: 3.96e-18 0.258282 6.7e-45 0.267138 0.895610 ( 0.017201) 0.628472 ( 0.104367) 0.897650 0.646750 --->fabia-------plink----: 3.96e-18 0.140457 1.01e-57 0.140914 0.895610 ( 0.017201) 0.754696 ( 0.039237) 0.897650 0.753050 --->fabia-------germline1: 3.96e-18 0.712749 4.45e-151 0.712087 0.895610 ( 0.017201) 0.183523 ( 0.008881) 0.897650 0.184850 --->fabia-------germline2: 3.96e-18 0.712517 4.13e-151 0.711922 0.895610 ( 0.017201) 0.183688 ( 0.008816) 0.897650 0.185000 --->fabia-------dash-----: 3.96e-18 0.855026 2.1e-170 0.854378 0.895610 ( 0.017201) 0.041232 ( 0.000450) 0.897650 0.041169 --->beagle1-----beagle2--: 3.96e-18 -0.364506 3.55e-56 -0.359220 0.269252 ( 0.067025) 0.628472 ( 0.104367) 0.254300 0.646750 --->beagle1-----plink----: 3.96e-18 -0.490333 2.21e-79 -0.485444 0.269252 ( 0.067025) 0.754696 ( 0.039237) 0.254300 0.753050 --->beagle1-----germline1: 9.16e-18 0.078581 1.94e-22 0.085729 0.269252 ( 0.067025) 0.183523 ( 0.008881) 0.254300 0.184850 --->beagle1-----germline2: 9.17e-18 0.078278 1.95e-22 0.085564 0.269252 ( 0.067025) 0.183688 ( 0.008816) 0.254300 0.185000 --->beagle1-----dash-----: 3.96e-18 0.220637 1.99e-56 0.228020 0.269252 ( 0.067025) 0.041232 ( 0.000450) 0.254300 0.041169 --->beagle2-----plink----: 1.82e-16 -0.113075 8.13e-19 -0.126224 0.628472 ( 0.104367) 0.754696 ( 0.039237) 0.646750 0.753050 --->beagle2-----germline1: 3.96e-18 0.452366 1.72e-65 0.444949 0.628472 ( 0.104367) 0.183523 ( 0.008881) 0.646750 0.184850 --->beagle2-----germline2: 3.96e-18 0.452352 1.49e-65 0.444784 0.628472 ( 0.104367) 0.183688 ( 0.008816) 0.646750 0.185000 --->beagle2-----dash-----: 3.96e-18 0.595695 5.8e-77 0.587240 0.628472 ( 0.104367) 0.041232 ( 0.000450) 0.646750 0.041169 --->plink-------germline1: 3.96e-18 0.571582 1.4e-113 0.571173 0.754696 ( 0.039237) 0.183523 ( 0.008881) 0.753050 0.184850 --->plink-------germline2: 3.96e-18 0.571414 1.14e-113 0.571008 0.754696 ( 0.039237) 0.183688 ( 0.008816) 0.753050 0.185000 --->plink-------dash-----: 3.96e-18 0.714020 5.83e-127 0.713464 0.754696 ( 0.039237) 0.041232 ( 0.000450) 0.753050 0.041169 --->germline1---germline2: 1.05e-01 -0.002771 9.96e-02 -0.000165 0.183523 ( 0.008881) 0.183688 ( 0.008816) 0.184850 0.185000 --->germline1---dash-----: 3.95e-18 0.142690 2.83e-119 0.142291 0.183523 ( 0.008881) 0.041232 ( 0.000450) 0.184850 0.041169 --->germline2---dash-----: 3.95e-18 0.142914 1.23e-119 0.142456 0.183688 ( 0.008816) 0.041232 ( 0.000450) 0.185000 0.041169 ######FPRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.035627 4.79e-96 -0.035255 0.000986 ( 0.000854) 0.036241 ( 0.003947) 0.000838 0.037144 --->fabia-------beagle2--: 3.96e-18 -0.012175 8.08e-35 -0.012607 0.000986 ( 0.000854) 0.013594 ( 0.006539) 0.000838 0.012518 --->fabia-------plink----: 3.96e-18 -0.011388 1.59e-74 -0.011401 0.000986 ( 0.000854) 0.012387 ( 0.001982) 0.000838 0.012472 --->fabia-------germline1: 3.96e-18 -0.040353 3.47e-163 -0.040250 0.000986 ( 0.000854) 0.041236 ( 0.000449) 0.000838 0.041169 --->fabia-------germline2: 3.96e-18 -0.040334 3.7e-163 -0.040238 0.000986 ( 0.000854) 0.041225 ( 0.000447) 0.000838 0.041162 --->fabia-------dash-----: 3.96e-18 -0.815080 2.6e-196 -0.815474 0.000986 ( 0.000854) 0.816460 ( 0.008885) 0.000838 0.815150 --->beagle1-----beagle2--: 3.96e-18 0.022896 5.21e-57 0.022647 0.036241 ( 0.003947) 0.013594 ( 0.006539) 0.037144 0.012518 --->beagle1-----plink----: 3.96e-18 0.024210 4.38e-73 0.023854 0.036241 ( 0.003947) 0.012387 ( 0.001982) 0.037144 0.012472 --->beagle1-----germline1: 9.16e-18 -0.004559 3.25e-22 -0.004995 0.036241 ( 0.003947) 0.041236 ( 0.000449) 0.037144 0.041169 --->beagle1-----germline2: 9.17e-18 -0.004544 3.52e-22 -0.004984 0.036241 ( 0.003947) 0.041225 ( 0.000447) 0.037144 0.041162 --->beagle1-----dash-----: 3.96e-18 -0.779992 1.83e-190 -0.780219 0.036241 ( 0.003947) 0.816460 ( 0.008885) 0.037144 0.815150 --->beagle2-----plink----: 1e+00 0.000000 8.94e-02 0.001206 0.013594 ( 0.006539) 0.012387 ( 0.001982) 0.012518 0.012472 --->beagle2-----germline1: 3.96e-18 -0.028056 2.3e-65 -0.027643 0.013594 ( 0.006539) 0.041236 ( 0.000449) 0.012518 0.041169 --->beagle2-----germline2: 3.96e-18 -0.028049 2.16e-65 -0.027631 0.013594 ( 0.006539) 0.041225 ( 0.000447) 0.012518 0.041162 --->beagle2-----dash-----: 3.96e-18 -0.802669 1.2e-188 -0.802867 0.013594 ( 0.006539) 0.816460 ( 0.008885) 0.012518 0.815150 --->plink-------germline1: 3.96e-18 -0.028858 1.4e-113 -0.028849 0.012387 ( 0.001982) 0.041236 ( 0.000449) 0.012472 0.041169 --->plink-------germline2: 3.96e-18 -0.028849 1.31e-113 -0.028838 0.012387 ( 0.001982) 0.041225 ( 0.000447) 0.012472 0.041162 --->plink-------dash-----: 3.96e-18 -0.803658 4.39e-192 -0.804073 0.012387 ( 0.001982) 0.816460 ( 0.008885) 0.012472 0.815150 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.041236 ( 0.000449) 0.041225 ( 0.000447) 0.041169 0.041162 --->germline1---dash-----: 3.95e-18 -0.774840 2.09e-196 -0.775224 0.041236 ( 0.000449) 0.816460 ( 0.008885) 0.041169 0.815150 --->germline2---dash-----: 3.95e-18 -0.774857 2.19e-196 -0.775235 0.041225 ( 0.000447) 0.816460 ( 0.008885) 0.041162 0.815150 ######FDRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.666044 9.46e-81 -0.662334 0.145374 ( 0.106449) 0.807708 ( 0.014825) 0.143287 0.808183 --->fabia-------beagle2--: 3.96e-18 -0.617933 4.18e-70 -0.616832 0.145374 ( 0.106449) 0.762206 ( 0.064603) 0.143287 0.759457 --->fabia-------plink----: 3.96e-18 -0.427279 5.26e-61 -0.423418 0.145374 ( 0.106449) 0.568792 ( 0.037664) 0.143287 0.570712 --->fabia-------germline1: 3.96e-18 -0.674175 6.27e-82 -0.671103 0.145374 ( 0.106449) 0.816477 ( 0.008881) 0.143287 0.815150 --->fabia-------germline2: 3.96e-18 -0.674233 6.35e-82 -0.671112 0.145374 ( 0.106449) 0.816485 ( 0.008850) 0.143287 0.815570 --->fabia-------dash-----: 3.8e-16 0.162538 1.67e-24 0.145369 0.145374 ( 0.106449) 4.55e-06 ( 2.6e-05) 0.143287 0.000000 --->beagle1-----beagle2--: 4.81e-10 0.043892 6.05e-11 0.045502 0.807708 ( 0.014825) 0.762206 ( 0.064603) 0.808183 0.759457 --->beagle1-----plink----: 3.96e-18 0.238094 1.94e-79 0.238916 0.807708 ( 0.014825) 0.568792 ( 0.037664) 0.808183 0.570712 --->beagle1-----germline1: 3.38e-10 -0.008234 2.6e-10 -0.008769 0.807708 ( 0.014825) 0.816477 ( 0.008881) 0.808183 0.815150 --->beagle1-----germline2: 2.03e-10 -0.008241 2.13e-10 -0.008778 0.807708 ( 0.014825) 0.816485 ( 0.008850) 0.808183 0.815570 --->beagle1-----dash-----: 3.96e-18 0.808133 6.22e-174 0.807703 0.807708 ( 0.014825) 4.55e-06 ( 2.6e-05) 0.808183 0.000000 --->beagle2-----plink----: 3.96e-18 0.191128 3.78e-45 0.193414 0.762206 ( 0.064603) 0.568792 ( 0.037664) 0.759457 0.570712 --->beagle2-----germline1: 8.48e-12 -0.052144 3.69e-13 -0.054271 0.762206 ( 0.064603) 0.816477 ( 0.008881) 0.759457 0.815150 --->beagle2-----germline2: 8.28e-12 -0.052272 3.59e-13 -0.054279 0.762206 ( 0.064603) 0.816485 ( 0.008850) 0.759457 0.815570 --->beagle2-----dash-----: 3.96e-18 0.764176 2.66e-108 0.762201 0.762206 ( 0.064603) 4.55e-06 ( 2.6e-05) 0.759457 0.000000 --->plink-------germline1: 3.96e-18 -0.246742 3.11e-82 -0.247685 0.568792 ( 0.037664) 0.816477 ( 0.008881) 0.570712 0.815150 --->plink-------germline2: 3.96e-18 -0.246787 2.75e-82 -0.247693 0.568792 ( 0.037664) 0.816485 ( 0.008850) 0.570712 0.815570 --->plink-------dash-----: 3.96e-18 0.569341 7.39e-119 0.568787 0.568792 ( 0.037664) 4.55e-06 ( 2.6e-05) 0.570712 0.000000 --->germline1---germline2: 2.72e-01 0.000419 1e+00 0.000000 0.816477 ( 0.008881) 0.816485 ( 0.008850) 0.815150 0.815570 --->germline1---dash-----: 3.95e-18 0.816110 2.01e-196 0.816472 0.816477 ( 0.008881) 4.55e-06 ( 2.6e-05) 0.815150 0.000000 --->germline2---dash-----: 3.95e-18 0.816036 1.42e-196 0.816481 0.816485 ( 0.008850) 4.55e-06 ( 2.6e-05) 0.815570 0.000000 ######specifitySnps###### --->fabia-------beagle1--: 3.96e-18 0.035646 4.79e-96 0.035255 0.040250 ( 0.000949) 0.004995 ( 0.003976) 0.040391 0.004497 --->fabia-------beagle2--: 3.96e-18 0.012200 8.08e-35 0.012607 0.040250 ( 0.000949) 0.027643 ( 0.006507) 0.040391 0.028838 --->fabia-------plink----: 3.96e-18 0.011368 1.59e-74 0.011401 0.040250 ( 0.000949) 0.028849 ( 0.002161) 0.040391 0.029043 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.040250 ( 0.000949) 0.000000 ( 0.000000) 0.040391 0.000000 --->fabia-------germline2: 3.95e-18 0.040325 3.7e-163 0.040238 0.040250 ( 0.000949) 1.14e-05 ( 4.95e-05) 0.040391 0.000000 --->fabia-------dash-----: 3.96e-18 -0.879370 5.76e-130 -0.877365 0.040250 ( 0.000949) 0.917615 ( 0.044406) 0.040391 0.924250 --->beagle1-----beagle2--: 3.96e-18 -0.022912 5.21e-57 -0.022647 0.004995 ( 0.003976) 0.027643 ( 0.006507) 0.004497 0.028838 --->beagle1-----plink----: 3.96e-18 -0.024211 4.38e-73 -0.023854 0.004995 ( 0.003976) 0.028849 ( 0.002161) 0.004497 0.029043 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.004995 ( 0.003976) 0.000000 ( 0.000000) 0.004497 0.000000 --->beagle1-----germline2: 9.16e-18 0.004549 3.52e-22 0.004984 0.004995 ( 0.003976) 1.14e-05 ( 4.95e-05) 0.004497 0.000000 --->beagle1-----dash-----: 3.96e-18 -0.914195 1.97e-131 -0.912620 0.004995 ( 0.003976) 0.917615 ( 0.044406) 0.004497 0.924250 --->beagle2-----plink----: 4.16e-01 -0.000552 8.94e-02 -0.001206 0.027643 ( 0.006507) 0.028849 ( 0.002161) 0.028838 0.029043 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.027643 ( 0.006507) 0.000000 ( 0.000000) 0.028838 0.000000 --->beagle2-----germline2: 3.96e-18 0.028075 2.16e-65 0.027631 0.027643 ( 0.006507) 1.14e-05 ( 4.95e-05) 0.028838 0.000000 --->beagle2-----dash-----: 3.96e-18 -0.891989 9.39e-131 -0.889972 0.027643 ( 0.006507) 0.917615 ( 0.044406) 0.028838 0.924250 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.028849 ( 0.002161) 0.000000 ( 0.000000) 0.029043 0.000000 --->plink-------germline2: 3.96e-18 0.028848 1.31e-113 0.028838 0.028849 ( 0.002161) 1.14e-05 ( 4.95e-05) 0.029043 0.000000 --->plink-------dash-----: 3.96e-18 -0.890785 6.94e-130 -0.888766 0.028849 ( 0.002161) 0.917615 ( 0.044406) 0.029043 0.924250 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 1.14e-05 ( 4.95e-05) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.917615 ( 0.044406) 0.000000 0.924250 --->germline2---dash-----: 3.95e-18 -0.919527 2.72e-132 -0.917604 1.14e-05 ( 4.95e-05) 0.917615 ( 0.044406) 0.000000 0.924250 ######sensitivitySnps###### --->fabia-------beagle1--: 3.96e-18 -0.359236 1.1e-53 -0.358420 0.493320 ( 0.072245) 0.851740 ( 0.092564) 0.496500 0.855000 --->fabia-------beagle2--: 8.8e-05 0.089760 2.57e-05 0.087580 0.493320 ( 0.072245) 0.405740 ( 0.177949) 0.496500 0.409000 --->fabia-------plink----: 3.95e-18 -0.421487 5.72e-74 -0.424110 0.493320 ( 0.072245) 0.917430 ( 0.044392) 0.496500 0.923750 --->fabia-------germline1: 3.96e-18 -0.421517 5.2e-74 -0.424295 0.493320 ( 0.072245) 0.917615 ( 0.044406) 0.496500 0.924250 --->fabia-------germline2: 3.96e-18 -0.421592 3.4e-74 -0.423995 0.493320 ( 0.072245) 0.917315 ( 0.044327) 0.496500 0.921500 --->fabia-------dash-----: 1.87e-14 0.488697 4.3e-01 -0.406680 0.493320 ( 0.072245) 0.900000 ( 5.143398) 0.496500 0.000000 --->beagle1-----beagle2--: 3.96e-18 0.448304 1.16e-44 0.446000 0.851740 ( 0.092564) 0.405740 ( 0.177949) 0.855000 0.409000 --->beagle1-----plink----: 2.73e-12 -0.091209 1.06e-12 -0.065690 0.851740 ( 0.092564) 0.917430 ( 0.044392) 0.855000 0.923750 --->beagle1-----germline1: 7.6e-12 -0.097532 9.61e-13 -0.065875 0.851740 ( 0.092564) 0.917615 ( 0.044406) 0.855000 0.924250 --->beagle1-----germline2: 7.6e-12 -0.097031 1.13e-12 -0.065575 0.851740 ( 0.092564) 0.917315 ( 0.044327) 0.855000 0.921500 --->beagle1-----dash-----: 1.88e-14 0.854550 9.26e-01 -0.048260 0.851740 ( 0.092564) 0.900000 ( 5.143398) 0.855000 0.000000 --->beagle2-----plink----: 3.96e-18 -0.514248 1.77e-48 -0.511690 0.405740 ( 0.177949) 0.917430 ( 0.044392) 0.409000 0.923750 --->beagle2-----germline1: 3.96e-18 -0.514433 1.73e-48 -0.511875 0.405740 ( 0.177949) 0.917615 ( 0.044406) 0.409000 0.924250 --->beagle2-----germline2: 3.96e-18 -0.514121 1.88e-48 -0.511575 0.405740 ( 0.177949) 0.917315 ( 0.044327) 0.409000 0.921500 --->beagle2-----dash-----: 1.88e-14 0.396293 3.4e-01 -0.494260 0.405740 ( 0.177949) 0.900000 ( 5.143398) 0.409000 0.000000 --->plink-------germline1: 2.47e-03 -0.001475 3.7e-03 -0.000185 0.917430 ( 0.044392) 0.917615 ( 0.044406) 0.923750 0.924250 --->plink-------germline2: 2.51e-02 -0.001210 7.1e-01 0.000115 0.917430 ( 0.044392) 0.917315 ( 0.044327) 0.923750 0.921500 --->plink-------dash-----: 1.87e-14 0.916744 9.73e-01 0.017430 0.917430 ( 0.044392) 0.900000 ( 5.143398) 0.923750 0.000000