Results: Wilcoxon-Rank-Sum Wilcoxon-median t-test t-test-mean mean1 (std) mean2 (std) median1 median2 ######Matthews###### --->fabia-------beagle1--: 3.96e-18 0.739736 4.18e-97 0.726913 0.873297 (0.078294) 0.146384 (0.030223) 0.889206 0.142026 --->fabia-------beagle2--: 3.96e-18 0.566089 3.24e-73 0.555175 0.873297 (0.078294) 0.318122 (0.079749) 0.889206 0.300348 --->fabia-------plink----: 4.6e-18 0.372698 3.58e-52 0.359058 0.873297 (0.078294) 0.514239 (0.086377) 0.889206 0.513449 --->fabia-------germline1: 3.96e-18 0.891928 2.48e-105 0.877756 0.873297 (0.078294) -0.004459 (0.011549) 0.889206 -0.006326 --->fabia-------germline2: 3.96e-18 0.892827 9.82e-106 0.878960 0.873297 (0.078294) -0.005663 (0.009575) 0.889206 -0.007349 --->fabia-------dash-----: 3.96e-18 0.887596 7.24e-106 0.872453 0.873297 (0.078294) 0.000844 (0.000634) 0.889206 0.000799 --->beagle1-----beagle2--: 3.96e-18 -0.164261 1.45e-39 -0.171739 0.146384 (0.030223) 0.318122 (0.079749) 0.142026 0.300348 --->beagle1-----plink----: 3.96e-18 -0.362363 3.72e-65 -0.367855 0.146384 (0.030223) 0.514239 (0.086377) 0.142026 0.513449 --->beagle1-----germline1: 3.96e-18 0.148296 8.53e-68 0.150842 0.146384 (0.030223) -0.004459 (0.011549) 0.142026 -0.006326 --->beagle1-----germline2: 3.96e-18 0.149737 1.16e-70 0.152046 0.146384 (0.030223) -0.005663 (0.009575) 0.142026 -0.007349 --->beagle1-----dash-----: 3.96e-18 0.142532 1.48e-70 0.145540 0.146384 (0.030223) 0.000844 (0.000634) 0.142026 0.000799 --->beagle2-----plink----: 1.44e-17 -0.196152 2.18e-32 -0.196116 0.318122 (0.079749) 0.514239 (0.086377) 0.300348 0.513449 --->beagle2-----germline1: 3.96e-18 0.315425 7.82e-62 0.322581 0.318122 (0.079749) -0.004459 (0.011549) 0.300348 -0.006326 --->beagle2-----germline2: 3.96e-18 0.316953 8.13e-63 0.323785 0.318122 (0.079749) -0.005663 (0.009575) 0.300348 -0.007349 --->beagle2-----dash-----: 3.96e-18 0.311167 1.1e-62 0.317279 0.318122 (0.079749) 0.000844 (0.000634) 0.300348 0.000799 --->plink-------germline1: 3.96e-18 0.513255 1.69e-79 0.518697 0.514239 (0.086377) -0.004459 (0.011549) 0.513449 -0.006326 --->plink-------germline2: 3.96e-18 0.514513 1.57e-79 0.519901 0.514239 (0.086377) -0.005663 (0.009575) 0.513449 -0.007349 --->plink-------dash-----: 3.96e-18 0.508818 2.6e-79 0.513395 0.514239 (0.086377) 0.000844 (0.000634) 0.513449 0.000799 --->germline1---germline2: 8.84e-01 0.000159 2.26e-01 0.001204 -0.004459 (0.011549) -0.005663 (0.009575) -0.006326 -0.007349 --->germline1---dash-----: 2.29e-05 -0.005501 6.55e-06 -0.005302 -0.004459 (0.011549) 0.000844 (0.000634) -0.006326 0.000799 --->germline2---dash-----: 7.11e-09 -0.007460 3.5e-10 -0.006506 -0.005663 (0.009575) 0.000844 (0.000634) -0.007349 0.000799 ######F1###### --->fabia-------beagle1--: 3.96e-18 0.837207 4.95e-98 0.821096 0.866825 (0.089022) 0.045729 (0.020455) 0.887706 0.041199 --->fabia-------beagle2--: 3.96e-18 0.681339 1.17e-75 0.667875 0.866825 (0.089022) 0.198950 (0.092598) 0.887706 0.169224 --->fabia-------plink----: 4.46e-18 0.456279 9.24e-53 0.440526 0.866825 (0.089022) 0.426299 (0.108564) 0.887706 0.422207 --->fabia-------germline1: 3.96e-18 0.884076 4.78e-100 0.865659 0.866825 (0.089022) 0.001166 (0.000797) 0.887706 0.000983 --->fabia-------germline2: 3.96e-18 0.884329 4.59e-100 0.865917 0.866825 (0.089022) 0.000908 (0.000941) 0.887706 0.000688 --->fabia-------dash-----: 7.01e-18 0.272246 2.45e-49 0.255198 0.866825 (0.089022) 0.611628 (0.010407) 0.887706 0.610607 --->beagle1-----beagle2--: 3.96e-18 -0.142991 1.13e-31 -0.153221 0.045729 (0.020455) 0.198950 (0.092598) 0.041199 0.169224 --->beagle1-----plink----: 3.96e-18 -0.372923 5.27e-58 -0.380570 0.045729 (0.020455) 0.426299 (0.108564) 0.041199 0.422207 --->beagle1-----germline1: 3.96e-18 0.041908 1.99e-39 0.044563 0.045729 (0.020455) 0.001166 (0.000797) 0.041199 0.000983 --->beagle1-----germline2: 3.96e-18 0.042181 7.73e-40 0.044821 0.045729 (0.020455) 0.000908 (0.000941) 0.041199 0.000688 --->beagle1-----dash-----: 3.96e-18 -0.567957 1.97e-141 -0.565899 0.045729 (0.020455) 0.611628 (0.010407) 0.041199 0.610607 --->beagle2-----plink----: 2.92e-17 -0.226602 7.67e-31 -0.227349 0.198950 (0.092598) 0.426299 (0.108564) 0.169224 0.422207 --->beagle2-----germline1: 3.96e-18 0.186528 8.64e-39 0.197784 0.198950 (0.092598) 0.001166 (0.000797) 0.169224 0.000983 --->beagle2-----germline2: 3.96e-18 0.186909 7.23e-39 0.198043 0.198950 (0.092598) 0.000908 (0.000941) 0.169224 0.000688 --->beagle2-----dash-----: 3.96e-18 -0.424818 3.7e-67 -0.412677 0.198950 (0.092598) 0.611628 (0.010407) 0.169224 0.610607 --->plink-------germline1: 3.96e-18 0.417762 4.44e-62 0.425133 0.426299 (0.108564) 0.001166 (0.000797) 0.422207 0.000983 --->plink-------germline2: 3.96e-18 0.418005 4.29e-62 0.425391 0.426299 (0.108564) 0.000908 (0.000941) 0.422207 0.000688 --->plink-------dash-----: 5.1e-17 -0.193506 4.32e-31 -0.185328 0.426299 (0.108564) 0.611628 (0.010407) 0.422207 0.610607 --->germline1---germline2: 4.67e-03 0.000239 2.18e-03 0.000259 0.001166 (0.000797) 0.000908 (0.000941) 0.000983 0.000688 --->germline1---dash-----: 3.96e-18 -0.610336 3.28e-177 -0.610461 0.001166 (0.000797) 0.611628 (0.010407) 0.000983 0.610607 --->germline2---dash-----: 3.96e-18 -0.610637 2.21e-177 -0.610720 0.000908 (0.000941) 0.611628 (0.010407) 0.000688 0.610607 ######accuracy###### --->fabia-------beagle1--: 3.96e-18 0.033355 2.55e-50 0.033919 0.999904 ( 9.6e-05) 0.965986 (0.011660) 0.999923 0.966398 --->fabia-------beagle2--: 3.96e-18 0.006848 1.28e-35 0.007008 0.999904 ( 9.6e-05) 0.992896 (0.003606) 0.999923 0.993178 --->fabia-------plink----: 3.96e-18 0.001967 9.08e-42 0.002017 0.999904 ( 9.6e-05) 0.997888 (0.000855) 0.999923 0.997948 --->fabia-------germline1: 3.96e-18 0.392209 2.03e-164 0.392170 0.999904 ( 9.6e-05) 0.607735 (0.008974) 0.999923 0.607066 --->fabia-------germline2: 3.96e-18 0.232259 1.17e-139 0.232327 0.999904 ( 9.6e-05) 0.767577 (0.009471) 0.999923 0.767497 --->fabia-------dash-----: 3.96e-18 0.611834 3.11e-177 0.611818 0.999904 ( 9.6e-05) 0.388087 (0.010402) 0.999923 0.389148 --->beagle1-----beagle2--: 3.96e-18 -0.026276 2.1e-43 -0.026911 0.965986 (0.011660) 0.992896 (0.003606) 0.966398 0.993178 --->beagle1-----plink----: 3.96e-18 -0.031329 3.08e-48 -0.031902 0.965986 (0.011660) 0.997888 (0.000855) 0.966398 0.997948 --->beagle1-----germline1: 3.96e-18 0.358252 4.01e-141 0.358251 0.965986 (0.011660) 0.607735 (0.008974) 0.966398 0.607066 --->beagle1-----germline2: 3.96e-18 0.198760 1.14e-117 0.198408 0.965986 (0.011660) 0.767577 (0.009471) 0.966398 0.767497 --->beagle1-----dash-----: 3.96e-18 0.578237 1.82e-155 0.577899 0.965986 (0.011660) 0.388087 (0.010402) 0.966398 0.389148 --->beagle2-----plink----: 2.6e-17 -0.004827 9.31e-25 -0.004992 0.992896 (0.003606) 0.997888 (0.000855) 0.993178 0.997948 --->beagle2-----germline1: 3.96e-18 0.385221 1.39e-161 0.385161 0.992896 (0.003606) 0.607735 (0.008974) 0.993178 0.607066 --->beagle2-----germline2: 3.96e-18 0.225345 1.55e-137 0.225319 0.992896 (0.003606) 0.767577 (0.009471) 0.993178 0.767497 --->beagle2-----dash-----: 3.96e-18 0.604999 1.43e-172 0.604809 0.992896 (0.003606) 0.388087 (0.010402) 0.993178 0.389148 --->plink-------germline1: 3.96e-18 0.390135 6.2e-164 0.390153 0.997888 (0.000855) 0.607735 (0.008974) 0.997948 0.607066 --->plink-------germline2: 3.96e-18 0.230280 3.48e-139 0.230311 0.997888 (0.000855) 0.767577 (0.009471) 0.997948 0.767497 --->plink-------dash-----: 3.96e-18 0.609803 6.05e-177 0.609801 0.997888 (0.000855) 0.388087 (0.010402) 0.997948 0.389148 --->germline1---germline2: 3.96e-18 -0.159792 1.15e-144 -0.159842 0.607735 (0.008974) 0.767577 (0.009471) 0.607066 0.767497 --->germline1---dash-----: 3.96e-18 0.219672 6.5e-108 0.219648 0.607735 (0.008974) 0.388087 (0.010402) 0.607066 0.389148 --->germline2---dash-----: 3.96e-18 0.379659 1.67e-131 0.379490 0.767577 (0.009471) 0.388087 (0.010402) 0.767497 0.389148 ######FPR###### --->fabia-------beagle1--: 3.96e-18 -0.033420 2.39e-50 -0.033995 3.04e-05 (9.35e-05) 0.034026 (0.011676) 9.5e-06 0.033625 --->fabia-------beagle2--: 3.96e-18 -0.006887 1.58e-35 -0.007044 3.04e-05 (9.35e-05) 0.007075 (0.003635) 9.5e-06 0.006826 --->fabia-------plink----: 3.96e-18 -0.002047 2.1e-42 -0.002065 3.04e-05 (9.35e-05) 0.002095 (0.000857) 9.5e-06 0.002037 --->fabia-------germline1: 3.96e-18 -0.392076 2.07e-164 -0.392018 3.04e-05 (9.35e-05) 0.392048 (0.008973) 9.5e-06 0.392859 --->fabia-------germline2: 3.96e-18 -0.231901 1.3e-139 -0.231934 3.04e-05 (9.35e-05) 0.231964 (0.009461) 9.5e-06 0.232132 --->fabia-------dash-----: 3.96e-18 -0.999542 0e+00 -0.999547 3.04e-05 (9.35e-05) 0.999577 (0.000318) 9.5e-06 0.999600 --->beagle1-----beagle2--: 3.96e-18 0.026290 1.83e-43 0.026951 0.034026 (0.011676) 0.007075 (0.003635) 0.033625 0.006826 --->beagle1-----plink----: 3.96e-18 0.031326 3.19e-48 0.031931 0.034026 (0.011676) 0.002095 (0.000857) 0.033625 0.002037 --->beagle1-----germline1: 3.96e-18 -0.358088 4.2e-141 -0.358022 0.034026 (0.011676) 0.392048 (0.008973) 0.033625 0.392859 --->beagle1-----germline2: 3.96e-18 -0.198310 1.52e-117 -0.197938 0.034026 (0.011676) 0.231964 (0.009461) 0.033625 0.232132 --->beagle1-----dash-----: 3.96e-18 -0.966079 7.02e-192 -0.965552 0.034026 (0.011676) 0.999577 (0.000318) 0.033625 0.999600 --->beagle2-----plink----: 3.38e-17 0.004830 1.78e-24 0.004980 0.007075 (0.003635) 0.002095 (0.000857) 0.006826 0.002037 --->beagle2-----germline1: 3.96e-18 -0.385064 1.45e-161 -0.384973 0.007075 (0.003635) 0.392048 (0.008973) 0.006826 0.392859 --->beagle2-----germline2: 3.96e-18 -0.224902 1.8e-137 -0.224889 0.007075 (0.003635) 0.231964 (0.009461) 0.006826 0.232132 --->beagle2-----dash-----: 3.96e-18 -0.992640 6.41e-243 -0.992502 0.007075 (0.003635) 0.999577 (0.000318) 0.006826 0.999600 --->plink-------germline1: 3.96e-18 -0.389953 6.74e-164 -0.389953 0.002095 (0.000857) 0.392048 (0.008973) 0.002037 0.392859 --->plink-------germline2: 3.96e-18 -0.229837 3.93e-139 -0.229869 0.002095 (0.000857) 0.231964 (0.009461) 0.002037 0.232132 --->plink-------dash-----: 3.96e-18 -0.997498 9.39e-305 -0.997482 0.002095 (0.000857) 0.999577 (0.000318) 0.002037 0.999600 --->germline1---germline2: 3.96e-18 0.160012 1.3e-144 0.160084 0.392048 (0.008973) 0.231964 (0.009461) 0.392859 0.232132 --->germline1---dash-----: 3.96e-18 -0.607424 2.2e-183 -0.607529 0.392048 (0.008973) 0.999577 (0.000318) 0.392859 0.999600 --->germline2---dash-----: 3.96e-18 -0.767572 3.09e-191 -0.767613 0.231964 (0.009461) 0.999577 (0.000318) 0.232132 0.999600 ######FDR###### --->fabia-------beagle1--: 3.96e-18 -0.935041 2.44e-95 -0.916128 0.060340 (0.105434) 0.976468 (0.011131) 0.030291 0.978967 --->fabia-------beagle2--: 3.96e-18 -0.841158 1.23e-84 -0.822909 0.060340 (0.105434) 0.883250 (0.069187) 0.030291 0.907528 --->fabia-------plink----: 4.2e-18 -0.683605 3.74e-66 -0.660130 0.060340 (0.105434) 0.720470 (0.095087) 0.030291 0.731752 --->fabia-------germline1: 3.96e-18 -0.958705 2.5e-96 -0.939075 0.060340 (0.105434) 0.999416 (0.000399) 0.030291 0.999508 --->fabia-------germline2: 3.95e-18 -0.958698 2.59e-96 -0.939204 0.060340 (0.105434) 0.999545 (0.000472) 0.030291 0.999655 --->fabia-------dash-----: 4.33e-18 -0.570666 9.54e-74 -0.551573 0.060340 (0.105434) 0.611913 (0.010402) 0.030291 0.610852 --->beagle1-----beagle2--: 3.96e-18 0.082180 8.16e-26 0.093219 0.976468 (0.011131) 0.883250 (0.069187) 0.978967 0.907528 --->beagle1-----plink----: 3.96e-18 0.245108 1.13e-47 0.255998 0.976468 (0.011131) 0.720470 (0.095087) 0.978967 0.731752 --->beagle1-----germline1: 3.96e-18 -0.021483 1.7e-37 -0.022947 0.976468 (0.011131) 0.999416 (0.000399) 0.978967 0.999508 --->beagle1-----germline2: 3.96e-18 -0.021621 7.04e-38 -0.023076 0.976468 (0.011131) 0.999545 (0.000472) 0.978967 0.999655 --->beagle1-----dash-----: 3.96e-18 0.365521 8.27e-137 0.364555 0.976468 (0.011131) 0.611913 (0.010402) 0.978967 0.610852 --->beagle2-----plink----: 1.09e-16 0.159554 2.59e-26 0.162780 0.883250 (0.069187) 0.720470 (0.095087) 0.907528 0.731752 --->beagle2-----germline1: 3.96e-18 -0.104366 1.07e-30 -0.116166 0.883250 (0.069187) 0.999416 (0.000399) 0.907528 0.999508 --->beagle2-----germline2: 3.96e-18 -0.104497 9.36e-31 -0.116295 0.883250 (0.069187) 0.999545 (0.000472) 0.907528 0.999655 --->beagle2-----dash-----: 4.08e-18 0.281903 1.23e-61 0.271337 0.883250 (0.069187) 0.611913 (0.010402) 0.907528 0.610852 --->plink-------germline1: 3.96e-18 -0.268039 1.23e-50 -0.278946 0.720470 (0.095087) 0.999416 (0.000399) 0.731752 0.999508 --->plink-------germline2: 3.96e-18 -0.268120 1.19e-50 -0.279075 0.720470 (0.095087) 0.999545 (0.000472) 0.731752 0.999655 --->plink-------dash-----: 1.02e-13 0.118560 1.18e-19 0.108557 0.720470 (0.095087) 0.611913 (0.010402) 0.731752 0.610852 --->germline1---germline2: 4.79e-03 -0.000104 2.3e-03 -0.000129 0.999416 (0.000399) 0.999545 (0.000472) 0.999508 0.999655 --->germline1---dash-----: 3.96e-18 0.387442 1.82e-157 0.387503 0.999416 (0.000399) 0.611913 (0.010402) 0.999508 0.610852 --->germline2---dash-----: 3.96e-18 0.387531 2.3e-157 0.387632 0.999545 (0.000472) 0.611913 (0.010402) 0.999655 0.610852 ######specifity###### --->fabia-------beagle1--: 3.96e-18 0.033428 2.39e-50 0.033995 0.999970 (9.35e-05) 0.965974 (0.011676) 0.999991 0.966375 --->fabia-------beagle2--: 3.96e-18 0.006909 1.58e-35 0.007044 0.999970 (9.35e-05) 0.992925 (0.003635) 0.999991 0.993174 --->fabia-------plink----: 3.96e-18 0.002016 2.1e-42 0.002065 0.999970 (9.35e-05) 0.997905 (0.000857) 0.999991 0.997963 --->fabia-------germline1: 3.96e-18 0.392101 2.07e-164 0.392018 0.999970 (9.35e-05) 0.607952 (0.008973) 0.999991 0.607141 --->fabia-------germline2: 3.96e-18 0.231908 1.3e-139 0.231934 0.999970 (9.35e-05) 0.768036 (0.009461) 0.999991 0.767868 --->fabia-------dash-----: 3.96e-18 0.783381 3.65e-70 0.777654 0.999970 (9.35e-05) 0.222316 (0.162863) 0.999991 0.203957 --->beagle1-----beagle2--: 3.96e-18 -0.026318 1.83e-43 -0.026951 0.965974 (0.011676) 0.992925 (0.003635) 0.966375 0.993174 --->beagle1-----plink----: 3.96e-18 -0.031359 3.19e-48 -0.031931 0.965974 (0.011676) 0.997905 (0.000857) 0.966375 0.997963 --->beagle1-----germline1: 3.96e-18 0.358046 4.2e-141 0.358022 0.965974 (0.011676) 0.607952 (0.008973) 0.966375 0.607141 --->beagle1-----germline2: 3.96e-18 0.198280 1.52e-117 0.197938 0.965974 (0.011676) 0.768036 (0.009461) 0.966375 0.767868 --->beagle1-----dash-----: 3.96e-18 0.751038 2.6e-68 0.743658 0.965974 (0.011676) 0.222316 (0.162863) 0.966375 0.203957 --->beagle2-----plink----: 3.38e-17 -0.004815 1.78e-24 -0.004980 0.992925 (0.003635) 0.997905 (0.000857) 0.993174 0.997963 --->beagle2-----germline1: 3.96e-18 0.385062 1.45e-161 0.384973 0.992925 (0.003635) 0.607952 (0.008973) 0.993174 0.607141 --->beagle2-----germline2: 3.96e-18 0.224920 1.8e-137 0.224889 0.992925 (0.003635) 0.768036 (0.009461) 0.993174 0.767868 --->beagle2-----dash-----: 3.96e-18 0.776998 9.37e-70 0.770609 0.992925 (0.003635) 0.222316 (0.162863) 0.993174 0.203957 --->plink-------germline1: 3.96e-18 0.389943 6.74e-164 0.389953 0.997905 (0.000857) 0.607952 (0.008973) 0.997963 0.607141 --->plink-------germline2: 3.96e-18 0.229830 3.93e-139 0.229869 0.997905 (0.000857) 0.768036 (0.009461) 0.997963 0.767868 --->plink-------dash-----: 3.96e-18 0.781456 4.39e-70 0.775589 0.997905 (0.000857) 0.222316 (0.162863) 0.997963 0.203957 --->germline1---germline2: 3.96e-18 -0.160000 1.3e-144 -0.160084 0.607952 (0.008973) 0.768036 (0.009461) 0.607141 0.767868 --->germline1---dash-----: 4.33e-18 0.390577 1.31e-42 0.385636 0.607952 (0.008973) 0.222316 (0.162863) 0.607141 0.203957 --->germline2---dash-----: 3.96e-18 0.550992 5.28e-56 0.545720 0.768036 (0.009461) 0.222316 (0.162863) 0.767868 0.203957 ######sensitivity###### --->fabia-------beagle1--: 6.83e-17 -0.149395 1.74e-23 -0.159980 0.820671 (0.108041) 0.980651 (0.047243) 0.856254 1.000000 --->fabia-------beagle2--: 1.92e-12 -0.130803 1.77e-13 -0.132424 0.820671 (0.108041) 0.953095 (0.100050) 0.856254 1.000000 --->fabia-------plink----: 1.1e-17 -0.138798 2.99e-25 -0.152604 0.820671 (0.108041) 0.973276 (0.032245) 0.856254 0.981397 --->fabia-------germline1: 5.35e-18 0.516940 4.79e-38 0.509608 0.820671 (0.108041) 0.311063 (0.207460) 0.856254 0.275242 --->fabia-------germline2: 3.96e-18 0.689297 3.41e-60 0.677138 0.820671 (0.108041) 0.143533 (0.147879) 0.856254 0.118012 --->fabia-------dash-----: 3.96e-18 -611503 3.17e-177 -611463 0.821 ( 0.108) 611464 ( 10396) 0.856 610401 --->beagle1-----beagle2--: 1e+00 0.000000 1.04e-03 0.027556 0.980651 (0.047243) 0.953095 (0.100050) 1.000000 1.000000 --->beagle1-----plink----: 4.81e-05 0.015748 1.98e-01 0.007376 0.980651 (0.047243) 0.973276 (0.032245) 1.000000 0.981397 --->beagle1-----germline1: 3.94e-18 0.672727 2.93e-53 0.669588 0.980651 (0.047243) 0.311063 (0.207460) 1.000000 0.275242 --->beagle1-----germline2: 3.78e-18 0.854543 3.41e-74 0.837119 0.980651 (0.047243) 0.143533 (0.147879) 1.000000 0.118012 --->beagle1-----dash-----: 3.96e-18 -611503 3.17e-177 -611463 0.981 ( 0.0472) 611464 ( 10396) 1 610401 --->beagle2-----plink----: 1.58e-01 0.009126 5.19e-02 -0.020180 0.953095 (0.100050) 0.973276 (0.032245) 1.000000 0.981397 --->beagle2-----germline1: 4.2e-18 0.650856 6.19e-49 0.642032 0.953095 (0.100050) 0.311063 (0.207460) 1.000000 0.275242 --->beagle2-----germline2: 3.86e-18 0.830399 3.05e-66 0.809562 0.953095 (0.100050) 0.143533 (0.147879) 1.000000 0.118012 --->beagle2-----dash-----: 3.96e-18 -611501 3.17e-177 -611463 0.953 ( 0.1) 611464 ( 10396) 1 610401 --->plink-------germline1: 3.96e-18 0.664348 4.46e-54 0.662212 0.973276 (0.032245) 0.311063 (0.207460) 0.981397 0.275242 --->plink-------germline2: 3.96e-18 0.840443 1.71e-76 0.829743 0.973276 (0.032245) 0.143533 (0.147879) 0.981397 0.118012 --->plink-------dash-----: 3.96e-18 -611503 3.17e-177 -611463 0.973 ( 0.0322) 611464 ( 10396) 0.981 610401 --->germline1---germline2: 3.68e-14 0.205773 2.79e-16 0.167530 0.311063 (0.207460) 0.143533 (0.147879) 0.275242 0.118012 --->germline1---dash-----: 3.96e-18 -611504 3.17e-177 -611464 0.311 ( 0.207) 611464 ( 10396) 0.275 610401 --->germline2---dash-----: 3.96e-18 -611504 3.17e-177 -611464 0.144 ( 0.148) 611464 ( 10396) 0.118 610401 ######trueN###### --->fabia-------beagle1--: 3.96e-18 1033376 7.44e-195 1033937 2e+06 ( 208) 965266 ( 11675) 2e+06 965718 --->fabia-------beagle2--: 3.96e-18 1006857 5.67e-244 1007007 2e+06 ( 208) 992197 ( 3635) 2e+06 992456 --->fabia-------plink----: 3.96e-18 1e+06 1.46e-303 1e+06 2e+06 ( 208) 997173 ( 858) 2e+06 997233 --->fabia-------germline1: 3.96e-18 1391775 7.13e-219 1391697 2e+06 ( 208) 607506 ( 8967) 2e+06 606696 --->fabia-------germline2: 3.96e-18 1231706 2.23e-211 1231731 2e+06 ( 208) 767472 ( 9453) 2e+06 767262 --->fabia-------dash-----: 3.96e-18 1611445 7.01e-219 1611401 2e+06 ( 208) 387802 ( 10393) 2e+06 388860 --->beagle1-----beagle2--: 3.96e-18 -26285 1.83e-43 -26931 965266 ( 11675) 992197 ( 3635) 965718 992456 --->beagle1-----plink----: 3.96e-18 -31333 3.18e-48 -31907 965266 ( 11675) 997173 ( 858) 965718 997233 --->beagle1-----germline1: 3.96e-18 357797 4.26e-141 357760 965266 ( 11675) 607506 ( 8967) 965718 606696 --->beagle1-----germline2: 3.96e-18 198145 1.54e-117 197793 965266 ( 11675) 767472 ( 9453) 965718 767262 --->beagle1-----dash-----: 3.96e-18 577781 2.04e-155 577464 965266 ( 11675) 387802 ( 10393) 965718 388860 --->beagle2-----plink----: 3.38e-17 -4821 1.78e-24 -4976 992197 ( 3635) 997173 ( 858) 992456 997233 --->beagle2-----germline1: 3.96e-18 384776 1.45e-161 384691 992197 ( 3635) 607506 ( 8967) 992456 606696 --->beagle2-----germline2: 3.96e-18 224735 1.8e-137 224724 992197 ( 3635) 767472 ( 9453) 992456 767262 --->beagle2-----dash-----: 3.96e-18 604593 1.66e-172 604394 992197 ( 3635) 387802 ( 10393) 992456 388860 --->plink-------germline1: 3.96e-18 389671 6.71e-164 389667 997173 ( 858) 607506 ( 8967) 997233 606696 --->plink-------germline2: 3.96e-18 229678 3.93e-139 229700 997173 ( 858) 767472 ( 9453) 997233 767262 --->plink-------dash-----: 3.96e-18 609354 5.93e-177 609371 997173 ( 858) 387802 ( 10393) 997233 388860 --->germline1---germline2: 3.96e-18 -159896 1.29e-144 -159967 607506 ( 8967) 767472 ( 9453) 606696 767262 --->germline1---dash-----: 3.96e-18 219736 5.86e-108 219704 607506 ( 8967) 387802 ( 10393) 606696 388860 --->germline2---dash-----: 3.96e-18 379793 1.42e-131 379670 767472 ( 9453) 387802 ( 10393) 767262 388860 ######falseP###### --->fabia-------beagle1--: 3.96e-18 -33375 2.55e-50 -33940 60.8 ( 187) 34001 ( 11667) 19 33602 --->fabia-------beagle2--: 3.96e-18 -6859 2.02e-35 -7009 60.8 ( 187) 7070 ( 3632) 19 6822 --->fabia-------plink----: 4.2e-18 -2001 1.07e-40 -2033 60.8 ( 187) 2094 ( 856) 19 2035 --->fabia-------germline1: 3.96e-18 -391781 2.28e-164 -391700 60.8 ( 187) 391760 ( 8966) 19 392572 --->fabia-------germline2: 3.96e-18 -231706 1.37e-139 -231733 60.8 ( 187) 231794 ( 9454) 19 231947 --->fabia-------dash-----: 1.05e-16 -529 5.98e-43 -509 60.8 ( 187) 570 ( 132) 19 570 --->beagle1-----beagle2--: 3.96e-18 26285 1.83e-43 26931 34001 ( 11667) 7070 ( 3632) 33602 6822 --->beagle1-----plink----: 3.96e-18 31333 3.18e-48 31907 34001 ( 11667) 2094 ( 856) 33602 2035 --->beagle1-----germline1: 3.96e-18 -357797 4.26e-141 -357760 34001 ( 11667) 391760 ( 8966) 33602 392572 --->beagle1-----germline2: 3.96e-18 -198148 1.54e-117 -197793 34001 ( 11667) 231794 ( 9454) 33602 231947 --->beagle1-----dash-----: 3.96e-18 32892 9.4e-50 33431 34001 ( 11667) 570 ( 132) 33602 570 --->beagle2-----plink----: 3.38e-17 4821 1.78e-24 4976 7070 ( 3632) 2094 ( 856) 6822 2035 --->beagle2-----germline1: 3.96e-18 -384777 1.45e-161 -384691 7070 ( 3632) 391760 ( 8966) 6822 392572 --->beagle2-----germline2: 3.96e-18 -224734 1.8e-137 -224724 7070 ( 3632) 231794 ( 9454) 6822 231947 --->beagle2-----dash-----: 4.08e-18 6361 9.78e-33 6500 7070 ( 3632) 570 ( 132) 6822 570 --->plink-------germline1: 3.96e-18 -389672 6.71e-164 -389667 2094 ( 856) 391760 ( 8966) 2035 392572 --->plink-------germline2: 3.96e-18 -229678 3.93e-139 -229700 2094 ( 856) 231794 ( 9454) 2035 231947 --->plink-------dash-----: 3.96e-18 1488 7.87e-33 1524 2094 ( 856) 570 ( 132) 2035 570 --->germline1---germline2: 3.96e-18 159896 1.29e-144 159967 391760 ( 8966) 231794 ( 9454) 392572 231947 --->germline1---dash-----: 3.96e-18 391263 1.99e-164 391190 391760 ( 8966) 570 ( 132) 392572 570 --->germline2---dash-----: 3.96e-18 231214 1.37e-139 231224 231794 ( 9454) 570 ( 132) 231947 570 ######falseN###### --->fabia-------beagle1--: 5.72e-17 109 2.37e-24 116 130 ( 75.8) 13.8 ( 33.8) 110 0 --->fabia-------beagle2--: 1.56e-12 96 1.53e-13 96.1 130 ( 75.8) 34.1 ( 75.4) 110 0 --->fabia-------plink----: 8.01e-18 101 3.88e-26 112 130 ( 75.8) 18.6 ( 19.8) 110 14.5 --->fabia-------germline1: 5.35e-18 -379 7.64e-37 -375 130 ( 75.8) 505 ( 160) 110 514 --->fabia-------germline2: 3.96e-18 -503 2.27e-55 -499 130 ( 75.8) 629 ( 128) 110 648 --->fabia-------dash-----: 6.91e-02 -27 1.81e-02 -33.4 130 ( 75.8) 164 ( 123) 110 156 --->beagle1-----beagle2--: 1e+00 0.000000 1.91e-03 -20.280000 13.820000 (33.848558) 34.100000 (75.422915) 0.000000 0.000000 --->beagle1-----plink----: 4.75e-05 -11.5 2.25e-01 -4.79 13.8 ( 33.8) 18.6 ( 19.8) 0 14.5 --->beagle1-----germline1: 3.95e-18 -490 2.57e-51 -491 13.8 ( 33.8) 505 ( 160) 0 514 --->beagle1-----germline2: 3.95e-18 -624 2.3e-68 -615 13.8 ( 33.8) 629 ( 128) 0 648 --->beagle1-----dash-----: 1.74e-15 -158 2.09e-20 -150 13.8 ( 33.8) 164 ( 123) 0 156 --->beagle2-----plink----: 1.67e-01 -6.5 4.86e-02 15.5 34.1 ( 75.4) 18.6 ( 19.8) 0 14.5 --->beagle2-----germline1: 4.2e-18 -473 2.99e-47 -471 34.1 ( 75.4) 505 ( 160) 0 514 --->beagle2-----germline2: 3.95e-18 -606 5.28e-62 -595 34.1 ( 75.4) 629 ( 128) 0 648 --->beagle2-----dash-----: 1.37e-11 -138 5.16e-14 -130 34.1 ( 75.4) 164 ( 123) 0 156 --->plink-------germline1: 3.96e-18 -485 1.78e-51 -486 18.6 ( 19.8) 505 ( 160) 14.5 514 --->plink-------germline2: 3.95e-18 -617 6.82e-69 -610 18.6 ( 19.8) 629 ( 128) 14.5 648 --->plink-------dash-----: 9.62e-16 -143 6.77e-20 -145 18.6 ( 19.8) 164 ( 123) 14.5 156 --->germline1---germline2: 3.68e-14 -152 1.28e-15 -124 505 ( 160) 629 ( 128) 514 648 --->germline1---dash-----: 1.7e-16 342 3.61e-24 341 505 ( 160) 164 ( 123) 514 156 --->germline2---dash-----: 4.6e-18 468 5.17e-42 465 629 ( 128) 164 ( 123) 648 156 ######trueP###### --->fabia-------beagle1--: 1.62e-16 -108 1.12e-23 -114 606 ( 108) 720 ( 82.6) 612 724 --->fabia-------beagle2--: 2.49e-12 -94.5 5.93e-13 -93.8 606 ( 108) 700 ( 104) 612 713 --->fabia-------plink----: 9.03e-18 -100 1.29e-25 -109 606 ( 108) 715 ( 82.6) 612 724 --->fabia-------germline1: 4.88e-18 380 1.23e-37 377 606 ( 108) 229 ( 156) 612 194 --->fabia-------germline2: 3.96e-18 504 2.19e-56 501 606 ( 108) 105 ( 108) 612 83 --->fabia-------dash-----: 3.95e-18 611 7.01e-77 606 606 ( 108) 0.000217 ( 0.00115) 612 0 --->beagle1-----beagle2--: 3.21e-04 99 1.91e-03 20.3 720 ( 82.6) 700 ( 104) 724 713 --->beagle1-----plink----: 1e+00 0 2.25e-01 4.79 720 ( 82.6) 715 ( 82.6) 724 724 --->beagle1-----germline1: 3.95e-18 490 2.57e-51 491 720 ( 82.6) 229 ( 156) 724 194 --->beagle1-----germline2: 3.95e-18 624 2.3e-68 615 720 ( 82.6) 105 ( 108) 724 83 --->beagle1-----dash-----: 3.95e-18 723 2.05e-95 720 720 ( 82.6) 0.000217 ( 0.00115) 724 0 --->beagle2-----plink----: 1.67e-01 6.5 4.86e-02 -15.5 700 ( 104) 715 ( 82.6) 713 724 --->beagle2-----germline1: 4.2e-18 473 2.99e-47 471 700 ( 104) 229 ( 156) 713 194 --->beagle2-----germline2: 3.95e-18 606 5.28e-62 595 700 ( 104) 105 ( 108) 713 83 --->beagle2-----dash-----: 3.95e-18 708 1.81e-84 700 700 ( 104) 0.000217 ( 0.00115) 713 0 --->plink-------germline1: 3.96e-18 485 1.78e-51 486 715 ( 82.6) 229 ( 156) 724 194 --->plink-------germline2: 3.95e-18 617 6.82e-69 610 715 ( 82.6) 105 ( 108) 724 83 --->plink-------dash-----: 3.95e-18 717 4.01e-95 715 715 ( 82.6) 0.000217 ( 0.00115) 724 0 --->germline1---germline2: 3.68e-14 152 1.28e-15 124 229 ( 156) 105 ( 108) 194 83 --->germline1---dash-----: 1.77e-16 250 1.35e-26 229 229 ( 156) 0.000217 ( 0.00115) 194 0 --->germline2---dash-----: 3.82e-14 130 4.57e-16 105 105 ( 108) 0.000217 ( 0.00115) 83 0 ######MatthewsSnps###### --->fabia-------beagle1--: 3.96e-18 0.724650 3.59e-87 0.715841 0.790573 (0.095289) 0.074731 (0.035970) 0.815793 0.072599 --->fabia-------beagle2--: 3.96e-18 0.496065 1.78e-56 0.489618 0.790573 (0.095289) 0.300955 (0.115819) 0.815793 0.278635 --->fabia-------plink----: 4.2e-18 0.388601 1.59e-52 0.379240 0.790573 (0.095289) 0.411333 (0.090114) 0.815793 0.395224 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.790573 (0.095289) 0.000000 (0.000000) 0.815793 0.000000 --->fabia-------germline2: 3.94e-18 0.800206 3.68e-93 0.789756 0.790573 (0.095289) 0.000816 (0.002569) 0.815793 0.000000 --->fabia-------dash-----: 3.94e-18 0.761453 3.68e-91 0.751354 0.790573 (0.095289) 0.039218 (1.63e-05) 0.815793 0.039216 --->beagle1-----beagle2--: 3.96e-18 -0.218722 1.15e-37 -0.226223 0.074731 (0.035970) 0.300955 (0.115819) 0.072599 0.278635 --->beagle1-----plink----: 3.96e-18 -0.334764 3.45e-57 -0.336601 0.074731 (0.035970) 0.411333 (0.090114) 0.072599 0.395224 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.074731 (0.035970) 0.000000 (0.000000) 0.072599 0.000000 --->beagle1-----germline2: 8.46e-18 0.073560 1.63e-37 0.073915 0.074731 (0.035970) 0.000816 (0.002569) 0.072599 0.000000 --->beagle1-----dash-----: 1.22e-13 0.034273 2.07e-16 0.035513 0.074731 (0.035970) 0.039218 (1.63e-05) 0.072599 0.039216 --->beagle2-----plink----: 1.1e-10 -0.113568 6.35e-12 -0.110378 0.300955 (0.115819) 0.411333 (0.090114) 0.278635 0.395224 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.300955 (0.115819) 0.000000 (0.000000) 0.278635 0.000000 --->beagle2-----germline2: 3.96e-18 0.291245 6.25e-46 0.300138 0.300955 (0.115819) 0.000816 (0.002569) 0.278635 0.000000 --->beagle2-----dash-----: 3.96e-18 0.252679 7.27e-41 0.261736 0.300955 (0.115819) 0.039218 (1.63e-05) 0.278635 0.039216 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.411333 (0.090114) 0.000000 (0.000000) 0.395224 0.000000 --->plink-------germline2: 3.96e-18 0.406855 2.95e-68 0.410516 0.411333 (0.090114) 0.000816 (0.002569) 0.395224 0.000000 --->plink-------dash-----: 3.96e-18 0.368573 3.26e-64 0.372114 0.411333 (0.090114) 0.039218 (1.63e-05) 0.395224 0.039216 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000816 (0.002569) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.039218 (1.63e-05) 0.000000 0.039216 --->germline2---dash-----: 1.32e-21 -0.039216 1.58e-118 -0.038402 0.000816 (0.002569) 0.039218 (1.63e-05) 0.000000 0.039216 ######F1Snps###### --->fabia-------beagle1--: 3.96e-18 0.731046 1.26e-82 0.719005 0.771000 (0.111895) 0.051995 (0.011668) 0.802395 0.049095 --->fabia-------beagle2--: 3.96e-18 0.570932 9.26e-59 0.561835 0.771000 (0.111895) 0.209165 (0.118142) 0.802395 0.175323 --->fabia-------plink----: 4.2e-18 0.447459 1.81e-51 0.435107 0.771000 (0.111895) 0.335893 (0.101859) 0.802395 0.311889 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.771000 (0.111895) 0.039216 (0.000000) 0.802395 0.039216 --->fabia-------germline2: 3.94e-18 0.744314 2.9e-83 0.731771 0.771000 (0.111895) 0.039229 ( 5.2e-05) 0.802395 0.039216 --->fabia-------dash-----: 3.94e-18 0.763504 2.27e-84 0.750934 0.771000 (0.111895) 0.020066 (0.000423) 0.802395 0.020000 --->beagle1-----beagle2--: 3.96e-18 -0.142551 9.3e-25 -0.157170 0.051995 (0.011668) 0.209165 (0.118142) 0.049095 0.175323 --->beagle1-----plink----: 3.96e-18 -0.275921 1.32e-48 -0.283898 0.051995 (0.011668) 0.335893 (0.101859) 0.049095 0.311889 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.051995 (0.011668) 0.039216 (0.000000) 0.049095 0.039216 --->beagle1-----germline2: 4.33e-18 0.011102 9.84e-19 0.012766 0.051995 (0.011668) 0.039229 ( 5.2e-05) 0.049095 0.039216 --->beagle1-----dash-----: 3.96e-18 0.030164 5.27e-48 0.031929 0.051995 (0.011668) 0.020066 (0.000423) 0.049095 0.020000 --->beagle2-----plink----: 6.35e-12 -0.129144 1.72e-13 -0.126728 0.209165 (0.118142) 0.335893 (0.101859) 0.175323 0.311889 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.209165 (0.118142) 0.039216 (0.000000) 0.175323 0.039216 --->beagle2-----germline2: 3.96e-18 0.153669 5.41e-26 0.169936 0.209165 (0.118142) 0.039229 ( 5.2e-05) 0.175323 0.039216 --->beagle2-----dash-----: 3.96e-18 0.172878 3.3e-29 0.189099 0.209165 (0.118142) 0.020066 (0.000423) 0.175323 0.020000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.335893 (0.101859) 0.039216 (0.000000) 0.311889 0.039216 --->plink-------germline2: 3.96e-18 0.288113 2.37e-50 0.296664 0.335893 (0.101859) 0.039229 ( 5.2e-05) 0.311889 0.039216 --->plink-------dash-----: 3.96e-18 0.307305 8.85e-53 0.315827 0.335893 (0.101859) 0.020066 (0.000423) 0.311889 0.020000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.039216 (0.000000) 0.039229 ( 5.2e-05) 0.039216 0.039216 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.039216 (0.000000) 0.020066 (0.000423) 0.039216 0.020000 --->germline2---dash-----: 1.32e-21 0.019253 1.86e-167 0.019163 0.039229 ( 5.2e-05) 0.020066 (0.000423) 0.039216 0.020000 ######accuracySnps###### --->fabia-------beagle1--: 3.96e-18 0.759152 1.74e-74 0.751816 0.992359 (0.004304) 0.240543 (0.142139) 0.993400 0.225250 --->fabia-------beagle2--: 3.96e-18 0.191688 3.19e-29 0.202903 0.992359 (0.004304) 0.789456 (0.126941) 0.993400 0.811850 --->fabia-------plink----: 3.96e-18 0.072476 1.95e-39 0.073636 0.992359 (0.004304) 0.918723 (0.033492) 0.993400 0.919400 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.992359 (0.004304) 0.020000 (0.000000) 0.993400 0.020000 --->fabia-------germline2: 3.94e-18 0.972760 2.46e-232 0.972008 0.992359 (0.004304) 0.020351 (0.001342) 0.993400 0.020000 --->fabia-------dash-----: 3.94e-18 -0.006968 8.3e-32 -0.007574 0.992359 (0.004304) 0.999933 (0.000431) 0.993400 1.000000 --->beagle1-----beagle2--: 3.96e-18 -0.547861 3.34e-56 -0.548913 0.240543 (0.142139) 0.789456 (0.126941) 0.225250 0.811850 --->beagle1-----plink----: 3.96e-18 -0.684131 3.78e-69 -0.678180 0.240543 (0.142139) 0.918723 (0.033492) 0.225250 0.919400 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.240543 (0.142139) 0.020000 (0.000000) 0.225250 0.020000 --->beagle1-----germline2: 4.33e-18 0.213085 3.21e-28 0.220192 0.240543 (0.142139) 0.020351 (0.001342) 0.225250 0.020000 --->beagle1-----dash-----: 3.96e-18 -0.766312 8.42e-75 -0.759390 0.240543 (0.142139) 0.999933 (0.000431) 0.225250 1.000000 --->beagle2-----plink----: 5.87e-15 -0.117605 1e-16 -0.129267 0.789456 (0.126941) 0.918723 (0.033492) 0.811850 0.919400 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.789456 (0.126941) 0.020000 (0.000000) 0.811850 0.020000 --->beagle2-----germline2: 3.96e-18 0.780578 4.3e-80 0.769105 0.789456 (0.126941) 0.020351 (0.001342) 0.811850 0.020000 --->beagle2-----dash-----: 3.96e-18 -0.199268 2.48e-30 -0.210477 0.789456 (0.126941) 0.999933 (0.000431) 0.811850 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.918723 (0.033492) 0.020000 (0.000000) 0.919400 0.020000 --->plink-------germline2: 3.96e-18 0.899545 1.78e-143 0.898372 0.918723 (0.033492) 0.020351 (0.001342) 0.919400 0.020000 --->plink-------dash-----: 3.95e-18 -0.079961 1.95e-43 -0.081210 0.918723 (0.033492) 0.999933 (0.000431) 0.919400 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.020000 (0.000000) 0.020351 (0.001342) 0.020000 0.020000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.020000 (0.000000) 0.999933 (0.000431) 0.020000 1.000000 --->germline2---dash-----: 1.32e-21 -0.980000 1.05e-279 -0.979582 0.020351 (0.001342) 0.999933 (0.000431) 0.020000 1.000000 ######FPRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.781579 7.44e-75 -0.774217 0.000739 (0.004086) 0.774956 (0.145040) 0.000000 0.790561 --->fabia-------beagle2--: 3.96e-18 -0.202512 3.15e-30 -0.214065 0.000739 (0.004086) 0.214804 (0.129584) 0.000000 0.191990 --->fabia-------plink----: 3.95e-18 -0.079379 1.79e-41 -0.080381 0.000739 (0.004086) 0.081119 (0.034239) 0.000000 0.081888 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000739 (0.004086) 1.000000 (0.000000) 0.000000 1.000000 --->fabia-------germline2: 4.44e-21 -1.000000 8.23e-237 -0.998903 0.000739 (0.004086) 0.999642 (0.001369) 0.000000 1.000000 --->fabia-------dash-----: 6.69e-22 -0.980000 1.28e-237 -0.979260 0.000739 (0.004086) 0.979999 (8.48e-06) 0.000000 0.980000 --->beagle1-----beagle2--: 3.96e-18 0.559097 3.35e-56 0.560152 0.774956 (0.145040) 0.214804 (0.129584) 0.790561 0.191990 --->beagle1-----plink----: 3.96e-18 0.699649 2.68e-69 0.693837 0.774956 (0.145040) 0.081119 (0.034239) 0.790561 0.081888 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.774956 (0.145040) 1.000000 (0.000000) 0.790561 1.000000 --->beagle1-----germline2: 4.33e-18 -0.217434 3.21e-28 -0.224686 0.774956 (0.145040) 0.999642 (0.001369) 0.790561 1.000000 --->beagle1-----dash-----: 7.22e-18 -0.198013 1.73e-25 -0.205043 0.774956 (0.145040) 0.979999 (8.48e-06) 0.790561 0.980000 --->beagle2-----plink----: 3.69e-15 0.121651 5.2e-17 0.133685 0.214804 (0.129584) 0.081119 (0.034239) 0.191990 0.081888 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.214804 (0.129584) 1.000000 (0.000000) 0.191990 1.000000 --->beagle2-----germline2: 3.96e-18 -0.796484 4.46e-80 -0.784838 0.214804 (0.129584) 0.999642 (0.001369) 0.191990 1.000000 --->beagle2-----dash-----: 3.96e-18 -0.776619 5.5e-79 -0.765195 0.214804 (0.129584) 0.979999 (8.48e-06) 0.191990 0.980000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.081119 (0.034239) 1.000000 (0.000000) 0.081888 1.000000 --->plink-------germline2: 3.95e-18 -0.919687 1.79e-143 -0.918522 0.081119 (0.034239) 0.999642 (0.001369) 0.081888 1.000000 --->plink-------dash-----: 3.95e-18 -0.899973 1.44e-142 -0.898879 0.081119 (0.034239) 0.979999 (8.48e-06) 0.081888 0.980000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.999642 (0.001369) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.979999 (8.48e-06) 1.000000 0.980000 --->germline2---dash-----: 1.32e-21 0.020000 9.56e-117 0.019643 0.999642 (0.001369) 0.979999 (8.48e-06) 1.000000 0.980000 ######FDRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.973546 5.77e-99 -0.954314 0.018958 (0.101001) 0.973272 (0.006227) 0.000000 0.974835 --->fabia-------beagle2--: 3.96e-18 -0.883240 7.08e-85 -0.858552 0.018958 (0.101001) 0.877510 (0.084001) 0.000000 0.903915 --->fabia-------plink----: 3.96e-18 -0.794842 3.89e-76 -0.768929 0.018958 (0.101001) 0.787886 (0.084664) 0.000000 0.812858 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.018958 (0.101001) 0.980000 (0.000000) 0.000000 0.980000 --->fabia-------germline2: 4.44e-21 -0.980000 3.91e-99 -0.961035 0.018958 (0.101001) 0.979993 ( 2.7e-05) 0.000000 0.980000 --->fabia-------dash-----: 1e+00 0.000000 6.44e-02 0.018890 0.018958 (0.101001) 6.73e-05 (0.000431) 0.000000 0.000000 --->beagle1-----beagle2--: 3.96e-18 0.082395 1.87e-20 0.095762 0.973272 (0.006227) 0.877510 (0.084001) 0.974835 0.903915 --->beagle1-----plink----: 3.96e-18 0.174568 9.58e-40 0.185385 0.973272 (0.006227) 0.787886 (0.084664) 0.974835 0.812858 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.973272 (0.006227) 0.980000 (0.000000) 0.974835 0.980000 --->beagle1-----germline2: 4.33e-18 -0.005794 2.06e-18 -0.006721 0.973272 (0.006227) 0.979993 ( 2.7e-05) 0.974835 0.980000 --->beagle1-----dash-----: 3.96e-18 0.974029 5.38e-219 0.973204 0.973272 (0.006227) 6.73e-05 (0.000431) 0.974835 0.000000 --->beagle2-----plink----: 7.52e-12 0.089030 5.14e-12 0.089623 0.877510 (0.084001) 0.787886 (0.084664) 0.903915 0.812858 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.877510 (0.084001) 0.980000 (0.000000) 0.903915 0.980000 --->beagle2-----germline2: 3.96e-18 -0.088245 1.92e-21 -0.102483 0.877510 (0.084001) 0.979993 ( 2.7e-05) 0.903915 0.980000 --->beagle2-----dash-----: 3.96e-18 0.891710 4.01e-103 0.877442 0.877510 (0.084001) 6.73e-05 (0.000431) 0.903915 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.787886 (0.084664) 0.980000 (0.000000) 0.812858 0.980000 --->plink-------germline2: 3.96e-18 -0.181254 5.19e-41 -0.192107 0.787886 (0.084664) 0.979993 ( 2.7e-05) 0.812858 0.980000 --->plink-------dash-----: 3.96e-18 0.798504 3.46e-98 0.787819 0.787886 (0.084664) 6.73e-05 (0.000431) 0.812858 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.980000 (0.000000) 0.979993 ( 2.7e-05) 0.980000 0.980000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.980000 (0.000000) 6.73e-05 (0.000431) 0.980000 0.000000 --->germline2---dash-----: 1.32e-21 0.980000 0e+00 0.979926 0.979993 ( 2.7e-05) 6.73e-05 (0.000431) 0.980000 0.000000 ######specifitySnps###### --->fabia-------beagle1--: 3.96e-18 0.781579 7.44e-75 0.774217 0.999261 (0.004086) 0.225044 (0.145040) 1.000000 0.209439 --->fabia-------beagle2--: 3.96e-18 0.202517 3.15e-30 0.214065 0.999261 (0.004086) 0.785196 (0.129584) 1.000000 0.808010 --->fabia-------plink----: 3.95e-18 0.079361 1.79e-41 0.080381 0.999261 (0.004086) 0.918881 (0.034239) 1.000000 0.918112 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.999261 (0.004086) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------germline2: 4.44e-21 1.000000 8.23e-237 0.998903 0.999261 (0.004086) 0.000358 (0.001369) 1.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.999261 (0.004086) 1.000000 (0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 3.96e-18 -0.559117 3.35e-56 -0.560152 0.225044 (0.145040) 0.785196 (0.129584) 0.209439 0.808010 --->beagle1-----plink----: 3.96e-18 -0.699622 2.68e-69 -0.693837 0.225044 (0.145040) 0.918881 (0.034239) 0.209439 0.918112 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.225044 (0.145040) 0.000000 (0.000000) 0.209439 0.000000 --->beagle1-----germline2: 4.33e-18 0.217434 3.21e-28 0.224686 0.225044 (0.145040) 0.000358 (0.001369) 0.209439 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.225044 (0.145040) 1.000000 (0.000000) 0.209439 1.000000 --->beagle2-----plink----: 3.69e-15 -0.121627 5.2e-17 -0.133685 0.785196 (0.129584) 0.918881 (0.034239) 0.808010 0.918112 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.785196 (0.129584) 0.000000 (0.000000) 0.808010 0.000000 --->beagle2-----germline2: 3.96e-18 0.796515 4.46e-80 0.784838 0.785196 (0.129584) 0.000358 (0.001369) 0.808010 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.785196 (0.129584) 1.000000 (0.000000) 0.808010 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.918881 (0.034239) 0.000000 (0.000000) 0.918112 0.000000 --->plink-------germline2: 3.95e-18 0.919684 1.79e-143 0.918522 0.918881 (0.034239) 0.000358 (0.001369) 0.918112 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.918881 (0.034239) 1.000000 (0.000000) 0.918112 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000358 (0.001369) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 1.000000 (0.000000) 0.000000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000358 (0.001369) 1.000000 (0.000000) 0.000000 1.000000 ######sensitivitySnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.654150 (0.136574) 1.000000 (0.000000) 0.675000 1.000000 --->fabia-------beagle2--: 3.94e-18 -0.335021 8.66e-45 -0.344050 0.654150 (0.136574) 0.998200 (0.013362) 0.675000 1.000000 --->fabia-------plink----: 4.13e-18 -0.250047 1.32e-36 -0.256850 0.654150 (0.136574) 0.911000 (0.085608) 0.675000 0.935000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.654150 (0.136574) 1.000000 (0.000000) 0.675000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.654150 (0.136574) 1.000000 (0.000000) 0.675000 1.000000 --->fabia-------dash-----: 2.64e-12 0.647477 9.89e-01 -0.005850 0.654150 (0.136574) 0.660000 (4.226468) 0.675000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.998200 (0.013362) 1.000000 1.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.911000 (0.085608) 1.000000 0.935000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 1.000000 (0.000000) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 1.000000 (0.000000) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.660000 (4.226468) 1.000000 0.000000 --->beagle2-----plink----: 1.16e-14 0.104984 3.18e-17 0.087200 0.998200 (0.013362) 0.911000 (0.085608) 1.000000 0.935000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.998200 (0.013362) 1.000000 (0.000000) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.998200 (0.013362) 1.000000 (0.000000) 1.000000 1.000000 --->beagle2-----dash-----: 2.86e-17 1.000000 4.25e-01 0.338200 0.998200 (0.013362) 0.660000 (4.226468) 1.000000 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.911000 (0.085608) 1.000000 (0.000000) 0.935000 1.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.911000 (0.085608) 1.000000 (0.000000) 0.935000 1.000000 --->plink-------dash-----: 1.99e-12 0.904965 5.53e-01 0.251000 0.911000 (0.085608) 0.660000 (4.226468) 0.935000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 1.000000 (0.000000) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.660000 (4.226468) 1.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.660000 (4.226468) 1.000000 0.000000 ######trueNSnps###### --->fabia-------beagle1--: 3.96e-18 7659 7.44e-75 7587 9793 ( 40) 2205 ( 1421) 9800 2052 --->fabia-------beagle2--: 3.96e-18 1985 3.15e-30 2098 9793 ( 40) 7695 ( 1270) 9800 7918 --->fabia-------plink----: 3.95e-18 778 1.79e-41 788 9793 ( 40) 9005 ( 336) 9800 8998 --->fabia-------germline1: 1e+00 0 1e+00 0 9793 ( 40) 0 ( 0) 9800 0 --->fabia-------germline2: 4.44e-21 9800 8.23e-237 9789 9793 ( 40) 3.51 ( 13.4) 9800 0 --->fabia-------dash-----: 1e+00 0 1.06e-01 -6.58 9793 ( 40) 9799 ( 4.23) 9800 9800 --->beagle1-----beagle2--: 3.96e-18 -5480 3.35e-56 -5489 2205 ( 1421) 7695 ( 1270) 2052 7918 --->beagle1-----plink----: 3.96e-18 -6856 2.68e-69 -6800 2205 ( 1421) 9005 ( 336) 2052 8998 --->beagle1-----germline1: 1e+00 0 1e+00 0 2205 ( 1421) 0 ( 0) 2052 0 --->beagle1-----germline2: 4.33e-18 2131 3.21e-28 2202 2205 ( 1421) 3.51 ( 13.4) 2052 0 --->beagle1-----dash-----: 3.96e-18 -7663 8.41e-75 -7594 2205 ( 1421) 9799 ( 4.23) 2052 9800 --->beagle2-----plink----: 3.69e-15 -1192 5.2e-17 -1310 7695 ( 1270) 9005 ( 336) 7918 8998 --->beagle2-----germline1: 1e+00 0 1e+00 0 7695 ( 1270) 0 ( 0) 7918 0 --->beagle2-----germline2: 3.96e-18 7806 4.46e-80 7691 7695 ( 1270) 3.51 ( 13.4) 7918 0 --->beagle2-----dash-----: 3.96e-18 -1993 2.58e-30 -2104 7695 ( 1270) 9799 ( 4.23) 7918 9800 --->plink-------germline1: 1e+00 0 1e+00 0 9005 ( 336) 0 ( 0) 8998 0 --->plink-------germline2: 3.95e-18 9013 1.79e-143 9002 9005 ( 336) 3.51 ( 13.4) 8998 0 --->plink-------dash-----: 3.95e-18 -783 1.47e-42 -794 9005 ( 336) 9799 ( 4.23) 8998 9800 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 3.510000 (13.417533) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 9799 ( 4.23) 0 9800 --->germline2---dash-----: 1.32e-21 -9800 7.68e-280 -9796 3.51 ( 13.4) 9799 ( 4.23) 0 9800 ######falsePSnps###### --->fabia-------beagle1--: 3.96e-18 -7659 7.44e-75 -7587 7.24 ( 40) 7595 ( 1421) 0 7748 --->fabia-------beagle2--: 3.96e-18 -1985 3.15e-30 -2098 7.24 ( 40) 2105 ( 1270) 0 1882 --->fabia-------plink----: 3.95e-18 -778 1.79e-41 -788 7.24 ( 40) 795 ( 336) 0 802 --->fabia-------germline1: 1e+00 0 1e+00 0 7.24 ( 40) 9800 ( 0) 0 9800 --->fabia-------germline2: 4.44e-21 -9800 8.23e-237 -9789 7.24 ( 40) 9796 ( 13.4) 0 9800 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 7.240000 (40.046468) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 3.96e-18 5479 3.35e-56 5489 7595 ( 1421) 2105 ( 1270) 7748 1882 --->beagle1-----plink----: 3.96e-18 6857 2.68e-69 6800 7595 ( 1421) 795 ( 336) 7748 802 --->beagle1-----germline1: 1e+00 0 1e+00 0 7595 ( 1421) 9800 ( 0) 7748 9800 --->beagle1-----germline2: 4.33e-18 -2131 3.21e-28 -2202 7595 ( 1421) 9796 ( 13.4) 7748 9800 --->beagle1-----dash-----: 1e+00 0 1e+00 0 7595 ( 1421) 0 ( 0) 7748 0 --->beagle2-----plink----: 3.69e-15 1192 5.2e-17 1310 2105 ( 1270) 795 ( 336) 1882 802 --->beagle2-----germline1: 1e+00 0 1e+00 0 2105 ( 1270) 9800 ( 0) 1882 9800 --->beagle2-----germline2: 3.96e-18 -7806 4.46e-80 -7691 2105 ( 1270) 9796 ( 13.4) 1882 9800 --->beagle2-----dash-----: 1e+00 0 1e+00 0 2105 ( 1270) 0 ( 0) 1882 0 --->plink-------germline1: 1e+00 0 1e+00 0 795 ( 336) 9800 ( 0) 802 9800 --->plink-------germline2: 3.95e-18 -9013 1.79e-143 -9002 795 ( 336) 9796 ( 13.4) 802 9800 --->plink-------dash-----: 1e+00 0 1e+00 0 795 ( 336) 0 ( 0) 802 0 --->germline1---germline2: 1e+00 0 1e+00 0 9800 ( 0) 9796 ( 13.4) 9800 9800 --->germline1---dash-----: 1e+00 0 1e+00 0 9800 ( 0) 0 ( 0) 9800 0 --->germline2---dash-----: 1e+00 0 1e+00 0 9796 ( 13.4) 0 ( 0) 9800 0 ######falseNSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 69.2 ( 27.3) 0 ( 0) 65 0 --->fabia-------beagle2--: 3.94e-18 67 8.66e-45 68.8 69.2 ( 27.3) 0.36 ( 2.67) 65 0 --->fabia-------plink----: 4.12e-18 50 1.32e-36 51.4 69.2 ( 27.3) 17.8 ( 17.1) 65 13 --->fabia-------germline1: 1e+00 0 1e+00 0 69.2 ( 27.3) 0 ( 0) 65 0 --->fabia-------germline2: 1e+00 0 1e+00 0 69.2 ( 27.3) 0 ( 0) 65 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 69.2 ( 27.3) 200 ( 0) 65 200 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.360000 (2.672418) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0 1e+00 0 0 ( 0) 17.8 ( 17.1) 0 13 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 0 ( 0) 200 ( 0) 0 200 --->beagle2-----plink----: 1.16e-14 -21 3.18e-17 -17.4 0.36 ( 2.67) 17.8 ( 17.1) 0 13 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.360000 (2.672418) 0.000000 (0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.360000 (2.672418) 0.000000 (0.000000) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 0.36 ( 2.67) 200 ( 0) 0 200 --->plink-------germline1: 1e+00 0 1e+00 0 17.8 ( 17.1) 0 ( 0) 13 0 --->plink-------germline2: 1e+00 0 1e+00 0 17.8 ( 17.1) 0 ( 0) 13 0 --->plink-------dash-----: 1e+00 0 1e+00 0 17.8 ( 17.1) 200 ( 0) 13 200 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 200 ( 0) 0 200 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 200 ( 0) 0 200 ######truePSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 131 ( 27.3) 200 ( 0) 135 200 --->fabia-------beagle2--: 3.94e-18 -67 8.66e-45 -68.8 131 ( 27.3) 200 ( 2.67) 135 200 --->fabia-------plink----: 4.12e-18 -50 1.32e-36 -51.4 131 ( 27.3) 182 ( 17.1) 135 187 --->fabia-------germline1: 1e+00 0 1e+00 0 131 ( 27.3) 200 ( 0) 135 200 --->fabia-------germline2: 1e+00 0 1e+00 0 131 ( 27.3) 200 ( 0) 135 200 --->fabia-------dash-----: 1e+00 0 1e+00 0 131 ( 27.3) 0 ( 0) 135 0 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 200 ( 0) 200 ( 2.67) 200 200 --->beagle1-----plink----: 1e+00 0 1e+00 0 200 ( 0) 182 ( 17.1) 200 187 --->beagle1-----germline1: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->beagle1-----germline2: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->beagle1-----dash-----: 1e+00 0 1e+00 0 200 ( 0) 0 ( 0) 200 0 --->beagle2-----plink----: 1.16e-14 21 3.18e-17 17.4 200 ( 2.67) 182 ( 17.1) 200 187 --->beagle2-----germline1: 1e+00 0 1e+00 0 200 ( 2.67) 200 ( 0) 200 200 --->beagle2-----germline2: 1e+00 0 1e+00 0 200 ( 2.67) 200 ( 0) 200 200 --->beagle2-----dash-----: 1e+00 0 1e+00 0 200 ( 2.67) 0 ( 0) 200 0 --->plink-------germline1: 1e+00 0 1e+00 0 182 ( 17.1) 200 ( 0) 187 200 --->plink-------germline2: 1e+00 0 1e+00 0 182 ( 17.1) 200 ( 0) 187 200 --->plink-------dash-----: 1e+00 0 1e+00 0 182 ( 17.1) 0 ( 0) 187 0 --->germline1---germline2: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->germline1---dash-----: 1e+00 0 1e+00 0 200 ( 0) 0 ( 0) 200 0 --->germline2---dash-----: 1e+00 0 1e+00 0 200 ( 0) 0 ( 0) 200 0 ######MatthewsSample###### --->fabia-------beagle1--: 3.79e-18 0.482972 1.54e-75 0.476139 0.995439 (0.024029) 0.519300 (0.086407) 1.000000 0.505291 --->fabia-------beagle2--: 1e+00 0.000000 1.57e-09 0.065081 0.995439 (0.024029) 0.930358 (0.096495) 1.000000 1.000000 --->fabia-------plink----: 3.84e-18 0.468149 4.23e-67 0.461366 0.995439 (0.024029) 0.534073 (0.101650) 1.000000 0.521648 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.995439 (0.024029) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.995439 (0.024029) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------dash-----: 3.23e-22 0.886745 1.8e-156 0.882771 0.995439 (0.024029) 0.112668 (0.003081) 1.000000 0.113208 --->beagle1-----beagle2--: 4.66e-18 -0.422380 2.39e-53 -0.411058 0.519300 (0.086407) 0.930358 (0.096495) 0.505291 1.000000 --->beagle1-----plink----: 3.13e-01 -0.015053 2.53e-01 -0.014773 0.519300 (0.086407) 0.534073 (0.101650) 0.505291 0.521648 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.519300 (0.086407) 0.000000 (0.000000) 0.505291 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.519300 (0.086407) 0.000000 (0.000000) 0.505291 0.000000 --->beagle1-----dash-----: 3.78e-18 0.403626 1.54e-69 0.406631 0.519300 (0.086407) 0.112668 (0.003081) 0.505291 0.113208 --->beagle2-----plink----: 3.93e-18 0.404335 1.43e-50 0.396285 0.930358 (0.096495) 0.534073 (0.101650) 1.000000 0.521648 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.930358 (0.096495) 0.000000 (0.000000) 1.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.930358 (0.096495) 0.000000 (0.000000) 1.000000 0.000000 --->beagle2-----dash-----: 7.26e-19 0.815228 3.29e-94 0.817690 0.930358 (0.096495) 0.112668 (0.003081) 1.000000 0.113208 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.534073 (0.101650) 0.000000 (0.000000) 0.521648 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.534073 (0.101650) 0.000000 (0.000000) 0.521648 0.000000 --->plink-------dash-----: 3.81e-18 0.414109 1.68e-64 0.421404 0.534073 (0.101650) 0.112668 (0.003081) 0.521648 0.113208 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.112668 (0.003081) 0.000000 0.113208 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.112668 (0.003081) 0.000000 0.113208 ######F1Sample###### --->fabia-------beagle1--: 3.78e-18 0.519959 9.73e-75 0.511783 0.995273 (0.025138) 0.483490 (0.094344) 1.000000 0.466063 --->fabia-------beagle2--: 1e+00 0.000000 2.91e-09 0.065405 0.995273 (0.025138) 0.929868 (0.098444) 1.000000 1.000000 --->fabia-------plink----: 3.84e-18 0.506473 9.65e-66 0.499172 0.995273 (0.025138) 0.496101 (0.113447) 1.000000 0.480000 --->fabia-------germline1: 3.23e-22 0.886754 1.46e-154 0.882604 0.995273 (0.025138) 0.112668 (0.003081) 1.000000 0.113208 --->fabia-------germline2: 3.23e-22 0.886754 1.46e-154 0.882604 0.995273 (0.025138) 0.112668 (0.003081) 1.000000 0.113208 --->fabia-------dash-----: 3.23e-22 0.939997 2.31e-157 0.935573 0.995273 (0.025138) 0.059700 (0.001714) 1.000000 0.060000 --->beagle1-----beagle2--: 4.95e-18 -0.459940 3.28e-53 -0.446379 0.483490 (0.094344) 0.929868 (0.098444) 0.466063 1.000000 --->beagle1-----plink----: 4.76e-01 -0.009934 3.73e-01 -0.012611 0.483490 (0.094344) 0.496101 (0.113447) 0.466063 0.480000 --->beagle1-----germline1: 3.76e-18 0.364831 3.44e-62 0.370821 0.483490 (0.094344) 0.112668 (0.003081) 0.466063 0.113208 --->beagle1-----germline2: 3.76e-18 0.364831 3.44e-62 0.370821 0.483490 (0.094344) 0.112668 (0.003081) 0.466063 0.113208 --->beagle1-----dash-----: 3.76e-18 0.417269 1.21e-67 0.423790 0.483490 (0.094344) 0.059700 (0.001714) 0.466063 0.060000 --->beagle2-----plink----: 3.93e-18 0.443631 5.2e-51 0.433767 0.929868 (0.098444) 0.496101 (0.113447) 1.000000 0.480000 --->beagle2-----germline1: 7.26e-19 0.815401 2.39e-93 0.817200 0.929868 (0.098444) 0.112668 (0.003081) 1.000000 0.113208 --->beagle2-----germline2: 7.26e-19 0.815401 2.39e-93 0.817200 0.929868 (0.098444) 0.112668 (0.003081) 1.000000 0.113208 --->beagle2-----dash-----: 7.26e-19 0.868587 5.16e-96 0.870168 0.929868 (0.098444) 0.059700 (0.001714) 1.000000 0.060000 --->plink-------germline1: 3.81e-18 0.374320 2.67e-56 0.383432 0.496101 (0.113447) 0.112668 (0.003081) 0.480000 0.113208 --->plink-------germline2: 3.81e-18 0.374320 2.67e-56 0.383432 0.496101 (0.113447) 0.112668 (0.003081) 0.480000 0.113208 --->plink-------dash-----: 3.81e-18 0.427541 2.03e-61 0.436401 0.496101 (0.113447) 0.059700 (0.001714) 0.480000 0.060000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.112668 (0.003081) 0.112668 (0.003081) 0.113208 0.113208 --->germline1---dash-----: 6.3e-23 0.053208 2.6e-159 0.052968 0.112668 (0.003081) 0.059700 (0.001714) 0.113208 0.060000 --->germline2---dash-----: 6.3e-23 0.053208 2.6e-159 0.052968 0.112668 (0.003081) 0.059700 (0.001714) 0.113208 0.060000 ######accuracySample###### --->fabia-------beagle1--: 3.73e-18 0.130048 1.65e-48 0.133050 0.999750 (0.001306) 0.866700 (0.047970) 1.000000 0.870000 --->fabia-------beagle2--: 1e+00 0.000000 2.18e-10 0.008250 0.999750 (0.001306) 0.991500 (0.011667) 1.000000 1.000000 --->fabia-------plink----: 3.83e-18 0.130015 8.58e-44 0.132050 0.999750 (0.001306) 0.867700 (0.053821) 1.000000 0.870000 --->fabia-------germline1: 3.23e-22 0.939934 1.11e-262 0.940050 0.999750 (0.001306) 0.059700 (0.001714) 1.000000 0.060000 --->fabia-------germline2: 3.23e-22 0.939934 1.11e-262 0.940050 0.999750 (0.001306) 0.059700 (0.001714) 1.000000 0.060000 --->fabia-------dash-----: 1e+00 0.000000 1.14e-02 -0.000569 0.999750 (0.001306) 1.000319 (0.001824) 1.000000 1.000000 --->beagle1-----beagle2--: 5.48e-18 -0.124982 7.44e-45 -0.124800 0.866700 (0.047970) 0.991500 (0.011667) 0.870000 1.000000 --->beagle1-----plink----: 1e+00 0.000000 8.82e-01 -0.001000 0.866700 (0.047970) 0.867700 (0.053821) 0.870000 0.870000 --->beagle1-----germline1: 3.75e-18 0.809988 2.9e-123 0.807000 0.866700 (0.047970) 0.059700 (0.001714) 0.870000 0.060000 --->beagle1-----germline2: 3.75e-18 0.809988 2.9e-123 0.807000 0.866700 (0.047970) 0.059700 (0.001714) 0.870000 0.060000 --->beagle1-----dash-----: 3.75e-18 -0.130022 8.6e-49 -0.133619 0.866700 (0.047970) 1.000319 (0.001824) 0.870000 1.000000 --->beagle2-----plink----: 3.83e-18 0.120021 8.41e-41 0.123800 0.991500 (0.011667) 0.867700 (0.053821) 1.000000 0.870000 --->beagle2-----germline1: 6.65e-19 0.930037 9.52e-190 0.931800 0.991500 (0.011667) 0.059700 (0.001714) 1.000000 0.060000 --->beagle2-----germline2: 6.65e-19 0.930037 9.52e-190 0.931800 0.991500 (0.011667) 0.059700 (0.001714) 1.000000 0.060000 --->beagle2-----dash-----: 1e+00 0.000000 2.77e-11 -0.008819 0.991500 (0.011667) 1.000319 (0.001824) 1.000000 1.000000 --->plink-------germline1: 3.81e-18 0.809956 1.13e-118 0.808000 0.867700 (0.053821) 0.059700 (0.001714) 0.870000 0.060000 --->plink-------germline2: 3.81e-18 0.809956 1.13e-118 0.808000 0.867700 (0.053821) 0.059700 (0.001714) 0.870000 0.060000 --->plink-------dash-----: 3.81e-18 -0.130048 6.39e-44 -0.132619 0.867700 (0.053821) 1.000319 (0.001824) 0.870000 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.059700 (0.001714) 0.059700 (0.001714) 0.060000 0.060000 --->germline1---dash-----: 6.3e-23 -0.940000 4.46e-242 -0.940619 0.059700 (0.001714) 1.000319 (0.001824) 0.060000 1.000000 --->germline2---dash-----: 6.3e-23 -0.940000 4.46e-242 -0.940619 0.059700 (0.001714) 1.000319 (0.001824) 0.060000 1.000000 ######FPRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.140426 (0.051521) 0.000000 0.138298 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.005319 (0.010087) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.140532 (0.057265) 0.000000 0.138298 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 1.000319 (0.001824) 0.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 1.000319 (0.001824) 0.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.940300 (0.001714) 0.000000 0.940000 --->beagle1-----beagle2--: 3.72e-18 0.132987 1.18e-46 0.135106 0.140426 (0.051521) 0.005319 (0.010087) 0.138298 0.000000 --->beagle1-----plink----: 1e+00 0.000000 9.88e-01 -0.000106 0.140426 (0.051521) 0.140532 (0.057265) 0.138298 0.138298 --->beagle1-----germline1: 3.71e-18 -0.861671 6.45e-123 -0.859894 0.140426 (0.051521) 1.000319 (0.001824) 0.138298 1.000000 --->beagle1-----germline2: 3.71e-18 -0.861671 6.45e-123 -0.859894 0.140426 (0.051521) 1.000319 (0.001824) 0.138298 1.000000 --->beagle1-----dash-----: 3.71e-18 -0.801671 7.83e-120 -0.799874 0.140426 (0.051521) 0.940300 (0.001714) 0.138298 0.940000 --->beagle2-----plink----: 3.78e-18 -0.132987 3.13e-42 -0.135213 0.005319 (0.010087) 0.140532 (0.057265) 0.000000 0.138298 --->beagle2-----germline1: 6.35e-20 -0.999992 4.5e-198 -0.995000 0.005319 (0.010087) 1.000319 (0.001824) 0.000000 1.000000 --->beagle2-----germline2: 6.35e-20 -0.999992 4.5e-198 -0.995000 0.005319 (0.010087) 1.000319 (0.001824) 0.000000 1.000000 --->beagle2-----dash-----: 6.35e-20 -0.939932 1.62e-195 -0.934981 0.005319 (0.010087) 0.940300 (0.001714) 0.000000 0.940000 --->plink-------germline1: 3.81e-18 -0.861681 1.11e-118 -0.859787 0.140532 (0.057265) 1.000319 (0.001824) 0.138298 1.000000 --->plink-------germline2: 3.81e-18 -0.861681 1.11e-118 -0.859787 0.140532 (0.057265) 1.000319 (0.001824) 0.138298 1.000000 --->plink-------dash-----: 3.81e-18 -0.801674 1.4e-115 -0.799768 0.140532 (0.057265) 0.940300 (0.001714) 0.138298 0.940000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000319 (0.001824) 1.000319 (0.001824) 1.000000 1.000000 --->germline1---dash-----: 6.3e-23 0.060000 3.11e-273 0.060019 1.000319 (0.001824) 0.940300 (0.001714) 1.000000 0.940000 --->germline2---dash-----: 6.3e-23 0.060000 3.11e-273 0.060019 1.000319 (0.001824) 0.940300 (0.001714) 1.000000 0.940000 ######FDRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.672918 (0.089220) 0.000000 0.684211 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.063325 (0.117366) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.661744 (0.108916) 0.000000 0.684211 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.940300 (0.001714) 0.000000 0.940000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.940300 (0.001714) 0.000000 0.940000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 3.87e-18 0.623280 1.95e-66 0.609592 0.672918 (0.089220) 0.063325 (0.117366) 0.684211 0.000000 --->beagle1-----plink----: 1e+00 0.000000 4.11e-01 0.011174 0.672918 (0.089220) 0.661744 (0.108916) 0.684211 0.684211 --->beagle1-----germline1: 3.78e-18 -0.256711 1.9e-51 -0.267382 0.672918 (0.089220) 0.940300 (0.001714) 0.684211 0.940000 --->beagle1-----germline2: 3.78e-18 -0.256711 1.9e-51 -0.267382 0.672918 (0.089220) 0.940300 (0.001714) 0.684211 0.940000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.672918 (0.089220) 0.000000 (0.000000) 0.684211 0.000000 --->beagle2-----plink----: 3.87e-18 -0.618717 1.35e-60 -0.598419 0.063325 (0.117366) 0.661744 (0.108916) 0.000000 0.684211 --->beagle2-----germline1: 6.58e-20 -0.939994 8.03e-89 -0.876975 0.063325 (0.117366) 0.940300 (0.001714) 0.000000 0.940000 --->beagle2-----germline2: 6.58e-20 -0.939994 8.03e-89 -0.876975 0.063325 (0.117366) 0.940300 (0.001714) 0.000000 0.940000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.063325 (0.117366) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------germline1: 3.81e-18 -0.266467 1.75e-45 -0.278556 0.661744 (0.108916) 0.940300 (0.001714) 0.684211 0.940000 --->plink-------germline2: 3.81e-18 -0.266467 1.75e-45 -0.278556 0.661744 (0.108916) 0.940300 (0.001714) 0.684211 0.940000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.661744 (0.108916) 0.000000 (0.000000) 0.684211 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.940300 (0.001714) 0.940300 (0.001714) 0.940000 0.940000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.940300 (0.001714) 0.000000 (0.000000) 0.940000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.940300 (0.001714) 0.000000 (0.000000) 0.940000 0.000000 ######specifitySample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.859894 (0.051788) 1.000000 0.861702 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.995000 (0.010416) 1.000000 1.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.859787 (0.057167) 1.000000 0.861702 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.995000 (0.028574) 1.000000 1.000000 --->beagle1-----beagle2--: 3.74e-18 -0.133000 1.18e-46 -0.135106 0.859894 (0.051788) 0.995000 (0.010416) 0.861702 1.000000 --->beagle1-----plink----: 1e+00 0.000000 9.88e-01 0.000106 0.859894 (0.051788) 0.859787 (0.057167) 0.861702 0.861702 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.859894 (0.051788) 0.000000 (0.000000) 0.861702 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.859894 (0.051788) 0.000000 (0.000000) 0.861702 0.000000 --->beagle1-----dash-----: 9.44e-18 -0.138285 6.23e-39 -0.135106 0.859894 (0.051788) 0.995000 (0.028574) 0.861702 1.000000 --->beagle2-----plink----: 3.78e-18 0.132987 3.13e-42 0.135213 0.995000 (0.010416) 0.859787 (0.057167) 1.000000 0.861702 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.995000 (0.010416) 0.000000 (0.000000) 1.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.995000 (0.010416) 0.000000 (0.000000) 1.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.995000 (0.010416) 0.995000 (0.028574) 1.000000 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.859787 (0.057167) 0.000000 (0.000000) 0.861702 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.859787 (0.057167) 0.000000 (0.000000) 0.861702 0.000000 --->plink-------dash-----: 6.17e-18 -0.132986 4.67e-39 -0.135213 0.859787 (0.057167) 0.995000 (0.028574) 0.861702 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.995000 (0.028574) 0.000000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.995000 (0.028574) 0.000000 1.000000 ######sensitivitySample###### --->fabia-------beagle1--: 1e+00 0.000000 2.1e-02 0.018333 0.991667 (0.043519) 0.973333 (0.069953) 1.000000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 5.12e-05 0.055000 0.991667 (0.043519) 0.936667 (0.127084) 1.000000 1.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.991667 (0.043519) 0.991667 (0.043519) 1.000000 1.000000 --->fabia-------germline1: 1e+00 0.000000 5.3e-01 -0.003333 0.991667 (0.043519) 0.995000 (0.028574) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 5.3e-01 -0.003333 0.991667 (0.043519) 0.995000 (0.028574) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.991667 (0.043519) 0.000000 (0.000000) 1.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 3.65e-04 0.036667 0.973333 (0.069953) 0.936667 (0.127084) 1.000000 1.000000 --->beagle1-----plink----: 1e+00 0.000000 1.09e-02 -0.018333 0.973333 (0.069953) 0.991667 (0.043519) 1.000000 1.000000 --->beagle1-----germline1: 1e+00 0.000000 6e-04 -0.021667 0.973333 (0.069953) 0.995000 (0.028574) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 6e-04 -0.021667 0.973333 (0.069953) 0.995000 (0.028574) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.973333 (0.069953) 0.000000 (0.000000) 1.000000 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1.08e-05 -0.055000 0.936667 (0.127084) 0.991667 (0.043519) 1.000000 1.000000 --->beagle2-----germline1: 1e+00 0.000000 5.75e-06 -0.058333 0.936667 (0.127084) 0.995000 (0.028574) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 5.75e-06 -0.058333 0.936667 (0.127084) 0.995000 (0.028574) 1.000000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.936667 (0.127084) 0.000000 (0.000000) 1.000000 0.000000 --->plink-------germline1: 1e+00 0.000000 3.2e-01 -0.003333 0.991667 (0.043519) 0.995000 (0.028574) 1.000000 1.000000 --->plink-------germline2: 1e+00 0.000000 3.2e-01 -0.003333 0.991667 (0.043519) 0.995000 (0.028574) 1.000000 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.991667 (0.043519) 0.000000 (0.000000) 1.000000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.995000 (0.028574) 0.995000 (0.028574) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.995000 (0.028574) 0.000000 (0.000000) 1.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.995000 (0.028574) 0.000000 (0.000000) 1.000000 0.000000 ######trueNSample###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 194 ( 0) 80.8 ( 4.87) 194 81 --->fabia-------beagle2--: 1e+00 0 1e+00 0 194 ( 0) 93.5 ( 0.979) 194 94 --->fabia-------plink----: 1e+00 0 1e+00 0 194 ( 0) 80.8 ( 5.37) 194 81 --->fabia-------germline1: 1e+00 0 1e+00 0 194 ( 0) 0 ( 0) 194 0 --->fabia-------germline2: 1e+00 0 1e+00 0 194 ( 0) 0 ( 0) 194 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 194 ( 0) 94 ( 0.171) 194 94 --->beagle1-----beagle2--: 3.7e-18 -12.5 1.18e-46 -12.7 80.8 ( 4.87) 93.5 ( 0.979) 81 94 --->beagle1-----plink----: 1e+00 0 9.88e-01 0.01 80.8 ( 4.87) 80.8 ( 5.37) 81 81 --->beagle1-----germline1: 1e+00 0 1e+00 0 80.8 ( 4.87) 0 ( 0) 81 0 --->beagle1-----germline2: 1e+00 0 1e+00 0 80.8 ( 4.87) 0 ( 0) 81 0 --->beagle1-----dash-----: 3.7e-18 -13 8.2e-48 -13.2 80.8 ( 4.87) 94 ( 0.171) 81 94 --->beagle2-----plink----: 3.77e-18 12.5 3.13e-42 12.7 93.5 ( 0.979) 80.8 ( 5.37) 94 81 --->beagle2-----germline1: 1e+00 0 1e+00 0 93.5 ( 0.979) 0 ( 0) 94 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 93.5 ( 0.979) 0 ( 0) 94 0 --->beagle2-----dash-----: 1e+00 0 7.88e-07 -0.5 93.5 ( 0.979) 94 ( 0.171) 94 94 --->plink-------germline1: 1e+00 0 1e+00 0 80.8 ( 5.37) 0 ( 0) 81 0 --->plink-------germline2: 1e+00 0 1e+00 0 80.8 ( 5.37) 0 ( 0) 81 0 --->plink-------dash-----: 3.8e-18 -13 7.06e-44 -13.2 80.8 ( 5.37) 94 ( 0.171) 81 94 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 94 ( 0.171) 0 94 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 94 ( 0.171) 0 94 ######falsePSample###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 0 ( 0) 13.2 ( 4.84) 0 13 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.500000 (0.948151) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0 1e+00 0 0 ( 0) 13.2 ( 5.38) 0 13 --->fabia-------germline1: 1e+00 0 1e+00 0 0 ( 0) 94 ( 0.171) 0 94 --->fabia-------germline2: 1e+00 0 1e+00 0 0 ( 0) 94 ( 0.171) 0 94 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 3.7e-18 12.5 1.18e-46 12.7 13.2 ( 4.84) 0.5 ( 0.948) 13 0 --->beagle1-----plink----: 1e+00 0 9.88e-01 -0.01 13.2 ( 4.84) 13.2 ( 5.38) 13 13 --->beagle1-----germline1: 3.69e-18 -81 6.45e-123 -80.8 13.2 ( 4.84) 94 ( 0.171) 13 94 --->beagle1-----germline2: 3.69e-18 -81 6.45e-123 -80.8 13.2 ( 4.84) 94 ( 0.171) 13 94 --->beagle1-----dash-----: 1e+00 0 1e+00 0 13.2 ( 4.84) 0 ( 0) 13 0 --->beagle2-----plink----: 3.77e-18 -12.5 3.13e-42 -12.7 0.5 ( 0.948) 13.2 ( 5.38) 0 13 --->beagle2-----germline1: 6.35e-20 -94 4.5e-198 -93.5 0.5 ( 0.948) 94 ( 0.171) 0 94 --->beagle2-----germline2: 6.35e-20 -94 4.5e-198 -93.5 0.5 ( 0.948) 94 ( 0.171) 0 94 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.500000 (0.948151) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------germline1: 3.79e-18 -81 1.11e-118 -80.8 13.2 ( 5.38) 94 ( 0.171) 13 94 --->plink-------germline2: 3.79e-18 -81 1.11e-118 -80.8 13.2 ( 5.38) 94 ( 0.171) 13 94 --->plink-------dash-----: 1e+00 0 1e+00 0 13.2 ( 5.38) 0 ( 0) 13 0 --->germline1---germline2: 1e+00 0 1e+00 0 94 ( 0.171) 94 ( 0.171) 94 94 --->germline1---dash-----: 1e+00 0 1e+00 0 94 ( 0.171) 0 ( 0) 94 0 --->germline2---dash-----: 1e+00 0 1e+00 0 94 ( 0.171) 0 ( 0) 94 0 ######falseNSample###### --->fabia-------beagle1--: 1e+00 0.000000 5.9e-02 -0.080000 0.050000 (0.261116) 0.130000 (0.366667) 0.000000 0.000000 --->fabia-------beagle2--: 1e+00 0.000000 1.12e-04 -0.300000 0.050000 (0.261116) 0.350000 (0.729951) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 2.59e-01 0.030000 0.050000 (0.261116) 0.020000 (0.200000) 0.000000 0.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.050000 (0.261116) 0.000000 (0.000000) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.050000 (0.261116) 0.000000 (0.000000) 0.000000 0.000000 --->fabia-------dash-----: 3.22e-22 -6 2.91e-129 -5.92 0.05 ( 0.261) 5.97 ( 0.171) 0 6 --->beagle1-----beagle2--: 1e+00 0.000000 3.65e-04 -0.220000 0.130000 (0.366667) 0.350000 (0.729951) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1.09e-02 0.110000 0.130000 (0.366667) 0.020000 (0.200000) 0.000000 0.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.130000 (0.366667) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.130000 (0.366667) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----dash-----: 3.26e-21 -6 2.38e-115 -5.84 0.13 ( 0.367) 5.97 ( 0.171) 0 6 --->beagle2-----plink----: 1e+00 0.000000 1.08e-05 0.330000 0.350000 (0.729951) 0.020000 (0.200000) 0.000000 0.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.350000 (0.729951) 0.000000 (0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.350000 (0.729951) 0.000000 (0.000000) 0.000000 0.000000 --->beagle2-----dash-----: 4.55e-20 -6 2.63e-88 -5.62 0.35 ( 0.73) 5.97 ( 0.171) 0 6 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.020000 (0.200000) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.020000 (0.200000) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------dash-----: 9.71e-23 -6 1.72e-136 -5.95 0.02 ( 0.2) 5.97 ( 0.171) 0 6 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 5.97 ( 0.171) 0 6 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 5.97 ( 0.171) 0 6 ######truePSample###### --->fabia-------beagle1--: 1e+00 0 2.1e-02 0.11 5.95 ( 0.261) 5.84 ( 0.42) 6 6 --->fabia-------beagle2--: 1e+00 0 5.12e-05 0.33 5.95 ( 0.261) 5.62 ( 0.763) 6 6 --->fabia-------plink----: 1e+00 0 1e+00 0 5.95 ( 0.261) 5.95 ( 0.261) 6 6 --->fabia-------germline1: 1e+00 0 5.3e-01 -0.02 5.95 ( 0.261) 5.97 ( 0.171) 6 6 --->fabia-------germline2: 1e+00 0 5.3e-01 -0.02 5.95 ( 0.261) 5.97 ( 0.171) 6 6 --->fabia-------dash-----: 3.86e-18 -659 2.65e-195 -658 5.95 ( 0.261) 664 ( 7.38) 6 665 --->beagle1-----beagle2--: 1e+00 0 3.65e-04 0.22 5.84 ( 0.42) 5.62 ( 0.763) 6 6 --->beagle1-----plink----: 1e+00 0 1.09e-02 -0.11 5.84 ( 0.42) 5.95 ( 0.261) 6 6 --->beagle1-----germline1: 1e+00 0 6e-04 -0.13 5.84 ( 0.42) 5.97 ( 0.171) 6 6 --->beagle1-----germline2: 1e+00 0 6e-04 -0.13 5.84 ( 0.42) 5.97 ( 0.171) 6 6 --->beagle1-----dash-----: 3.87e-18 -659 2.19e-195 -658 5.84 ( 0.42) 664 ( 7.38) 6 665 --->beagle2-----plink----: 1e+00 0 1.08e-05 -0.33 5.62 ( 0.763) 5.95 ( 0.261) 6 6 --->beagle2-----germline1: 1e+00 0 5.75e-06 -0.35 5.62 ( 0.763) 5.97 ( 0.171) 6 6 --->beagle2-----germline2: 1e+00 0 5.75e-06 -0.35 5.62 ( 0.763) 5.97 ( 0.171) 6 6 --->beagle2-----dash-----: 3.85e-18 -659 1.05e-195 -659 5.62 ( 0.763) 664 ( 7.38) 6 665 --->plink-------germline1: 1e+00 0 3.2e-01 -0.02 5.95 ( 0.261) 5.97 ( 0.171) 6 6 --->plink-------germline2: 1e+00 0 3.2e-01 -0.02 5.95 ( 0.261) 5.97 ( 0.171) 6 6 --->plink-------dash-----: 3.87e-18 -659 1.52e-195 -658 5.95 ( 0.261) 664 ( 7.38) 6 665 --->germline1---germline2: 1e+00 0 1e+00 0 5.97 ( 0.171) 5.97 ( 0.171) 6 6 --->germline1---dash-----: 3.87e-18 -659 2.24e-195 -658 5.97 ( 0.171) 664 ( 7.38) 6 665 --->germline2---dash-----: 3.87e-18 -659 2.24e-195 -658 5.97 ( 0.171) 664 ( 7.38) 6 665