Results: ######Matthews###### --->fabia-------beagle1--: 3.96e-18 0.488523 1.13e-99 0.486643 0.710043 ( 0.048882) 0.223400 ( 0.009312) 0.714826 0.222714 --->fabia-------beagle2--: 3.96e-18 0.484471 2.55e-98 0.482650 0.710043 ( 0.048882) 0.227394 ( 0.009712) 0.714826 0.227058 --->fabia-------plink----: 5.83e-01 0.002877 7.02e-01 0.001915 0.710043 ( 0.048882) 0.708128 ( 0.013631) 0.714826 0.710617 --->fabia-------germline1: 3.96e-18 0.751442 1.07e-120 0.749648 0.710043 ( 0.048882) -0.039604 ( 0.008207) 0.714826 -0.039580 --->fabia-------germline2: 3.96e-18 0.743082 1.8e-119 0.741400 0.710043 ( 0.048882) -0.031357 ( 0.007556) 0.714826 -0.032405 --->fabia-------dash-----: 3.96e-18 0.687378 5.89e-116 0.686013 0.710043 ( 0.048882) 0.024030 ( 0.003017) 0.714826 0.024141 --->beagle1-----beagle2--: 5.7e-07 -0.003840 1.14e-07 -0.003994 0.223400 ( 0.009312) 0.227394 ( 0.009712) 0.222714 0.227058 --->beagle1-----plink----: 3.96e-18 -0.484696 8.71e-152 -0.484728 0.223400 ( 0.009312) 0.708128 ( 0.013631) 0.222714 0.710617 --->beagle1-----germline1: 3.96e-18 0.262356 1.71e-131 0.263005 0.223400 ( 0.009312) -0.039604 ( 0.008207) 0.222714 -0.039580 --->beagle1-----germline2: 3.96e-18 0.254364 7.53e-134 0.254757 0.223400 ( 0.009312) -0.031357 ( 0.007556) 0.222714 -0.032405 --->beagle1-----dash-----: 3.96e-18 0.198896 3.55e-131 0.199370 0.223400 ( 0.009312) 0.024030 ( 0.003017) 0.222714 0.024141 --->beagle2-----plink----: 3.96e-18 -0.481105 8.61e-150 -0.480734 0.227394 ( 0.009712) 0.708128 ( 0.013631) 0.227058 0.710617 --->beagle2-----germline1: 3.96e-18 0.266405 1.03e-130 0.266998 0.227394 ( 0.009712) -0.039604 ( 0.008207) 0.227058 -0.039580 --->beagle2-----germline2: 3.96e-18 0.258649 1.69e-130 0.258750 0.227394 ( 0.009712) -0.031357 ( 0.007556) 0.227058 -0.032405 --->beagle2-----dash-----: 3.96e-18 0.203256 2.08e-129 0.203364 0.227394 ( 0.009712) 0.024030 ( 0.003017) 0.227058 0.024141 --->plink-------germline1: 3.96e-18 0.747768 3.63e-165 0.747733 0.708128 ( 0.013631) -0.039604 ( 0.008207) 0.710617 -0.039580 --->plink-------germline2: 3.96e-18 0.739506 9.05e-165 0.739485 0.708128 ( 0.013631) -0.031357 ( 0.007556) 0.710617 -0.032405 --->plink-------dash-----: 3.96e-18 0.684342 2.72e-168 0.684098 0.708128 ( 0.013631) 0.024030 ( 0.003017) 0.710617 0.024141 --->germline1---germline2: 4.55e-16 -0.008438 1.15e-24 -0.008248 -0.039604 ( 0.008207) -0.031357 ( 0.007556) -0.039580 -0.032405 --->germline1---dash-----: 3.96e-18 -0.063709 1.52e-102 -0.063634 -0.039604 ( 0.008207) 0.024030 ( 0.003017) -0.039580 0.024141 --->germline2---dash-----: 3.96e-18 -0.055535 3.18e-97 -0.055387 -0.031357 ( 0.007556) 0.024030 ( 0.003017) -0.032405 0.024141 ######F1###### --->fabia-------beagle1--: 3.96e-18 0.563977 2.43e-108 0.562891 0.701323 ( 0.046667) 0.138432 ( 0.006829) 0.705230 0.137561 --->fabia-------beagle2--: 3.96e-18 0.552671 5.76e-107 0.551284 0.701323 ( 0.046667) 0.150039 ( 0.007202) 0.705230 0.149213 --->fabia-------plink----: 1.16e-05 0.022886 9.26e-06 0.022719 0.701323 ( 0.046667) 0.678605 ( 0.016523) 0.705230 0.681743 --->fabia-------germline1: 3.96e-18 0.675758 1.43e-117 0.674706 0.701323 ( 0.046667) 0.026618 ( 0.003029) 0.705230 0.026515 --->fabia-------germline2: 3.96e-18 0.678899 2.03e-117 0.677870 0.701323 ( 0.046667) 0.023454 ( 0.003900) 0.705230 0.023227 --->fabia-------dash-----: 2.31e-17 0.086976 1.64e-32 0.084349 0.701323 ( 0.046667) 0.616975 ( 0.012126) 0.705230 0.616846 --->beagle1-----beagle2--: 3.96e-18 -0.011370 3.55e-44 -0.011607 0.138432 ( 0.006829) 0.150039 ( 0.007202) 0.137561 0.149213 --->beagle1-----plink----: 3.96e-18 -0.540424 1.23e-152 -0.540172 0.138432 ( 0.006829) 0.678605 ( 0.016523) 0.137561 0.681743 --->beagle1-----germline1: 3.96e-18 0.111336 5.1e-117 0.111815 0.138432 ( 0.006829) 0.026618 ( 0.003029) 0.137561 0.026515 --->beagle1-----germline2: 3.96e-18 0.114685 5.72e-118 0.114979 0.138432 ( 0.006829) 0.023454 ( 0.003900) 0.137561 0.023227 --->beagle1-----dash-----: 3.96e-18 -0.478261 8.24e-154 -0.478542 0.138432 ( 0.006829) 0.616975 ( 0.012126) 0.137561 0.616846 --->beagle2-----plink----: 3.96e-18 -0.529193 3.58e-150 -0.528565 0.150039 ( 0.007202) 0.678605 ( 0.016523) 0.149213 0.681743 --->beagle2-----germline1: 3.96e-18 0.122954 1.04e-119 0.123422 0.150039 ( 0.007202) 0.026618 ( 0.003029) 0.149213 0.026515 --->beagle2-----germline2: 3.96e-18 0.126354 1.01e-118 0.126586 0.150039 ( 0.007202) 0.023454 ( 0.003900) 0.149213 0.023227 --->beagle2-----dash-----: 3.96e-18 -0.466822 1.48e-151 -0.466935 0.150039 ( 0.007202) 0.616975 ( 0.012126) 0.149213 0.616846 --->plink-------germline1: 3.96e-18 0.652248 2.38e-158 0.651987 0.678605 ( 0.016523) 0.026618 ( 0.003029) 0.681743 0.026515 --->plink-------germline2: 3.96e-18 0.655349 2.94e-157 0.655151 0.678605 ( 0.016523) 0.023454 ( 0.003900) 0.681743 0.023227 --->plink-------dash-----: 3.96e-18 0.061739 5.29e-52 0.061630 0.678605 ( 0.016523) 0.616975 ( 0.012126) 0.681743 0.616846 --->germline1---germline2: 2.72e-15 0.003143 8.95e-21 0.003164 0.026618 ( 0.003029) 0.023454 ( 0.003900) 0.026515 0.023227 --->germline1---dash-----: 3.96e-18 -0.590071 2.22e-167 -0.590357 0.026618 ( 0.003029) 0.616975 ( 0.012126) 0.026515 0.616846 --->germline2---dash-----: 3.96e-18 -0.593184 1.42e-166 -0.593521 0.023454 ( 0.003900) 0.616975 ( 0.012126) 0.023227 0.616846 ######accuracy###### --->fabia-------beagle1--: 3.96e-18 0.246026 2.44e-120 0.245705 0.994367 ( 0.001050) 0.748662 ( 0.015595) 0.994477 0.748868 --->fabia-------beagle2--: 3.96e-18 0.207028 1.45e-115 0.206822 0.994367 ( 0.001050) 0.787545 ( 0.014665) 0.994477 0.787230 --->fabia-------plink----: 3.96e-18 0.014528 8.5e-92 0.014583 0.994367 ( 0.001050) 0.979784 ( 0.001561) 0.994477 0.980034 --->fabia-------germline1: 3.96e-18 0.382907 9.5e-157 0.382626 0.994367 ( 0.001050) 0.611741 ( 0.010508) 0.994477 0.611236 --->fabia-------germline2: 3.96e-18 0.229946 1.69e-134 0.229997 0.994367 ( 0.001050) 0.764370 ( 0.010669) 0.994477 0.764962 --->fabia-------dash-----: 3.96e-18 0.619831 4.43e-169 0.620030 0.994367 ( 0.001050) 0.374337 ( 0.012630) 0.994477 0.374422 --->beagle1-----beagle2--: 3.96e-18 -0.038615 1.97e-64 -0.038883 0.748662 ( 0.015595) 0.787545 ( 0.014665) 0.748868 0.787230 --->beagle1-----plink----: 3.96e-18 -0.231294 5.73e-119 -0.231121 0.748662 ( 0.015595) 0.979784 ( 0.001561) 0.748868 0.980034 --->beagle1-----germline1: 3.96e-18 0.137323 4.13e-89 0.136921 0.748662 ( 0.015595) 0.611741 ( 0.010508) 0.748868 0.611236 --->beagle1-----germline2: 1.81e-11 -0.015645 2.56e-13 -0.015707 0.748662 ( 0.015595) 0.764370 ( 0.010669) 0.748868 0.764962 --->beagle1-----dash-----: 3.96e-18 0.373707 4.25e-127 0.374325 0.748662 ( 0.015595) 0.374337 ( 0.012630) 0.748868 0.374422 --->beagle2-----plink----: 3.96e-18 -0.192470 3.11e-113 -0.192238 0.787545 ( 0.014665) 0.979784 ( 0.001561) 0.787230 0.980034 --->beagle2-----germline1: 3.96e-18 0.176344 5.28e-101 0.175804 0.787545 ( 0.014665) 0.611741 ( 0.010508) 0.787230 0.611236 --->beagle2-----germline2: 8.7e-16 0.023627 6.03e-23 0.023176 0.787545 ( 0.014665) 0.764370 ( 0.010669) 0.787230 0.764962 --->beagle2-----dash-----: 3.96e-18 0.412697 3.93e-133 0.413208 0.787545 ( 0.014665) 0.374337 ( 0.012630) 0.787230 0.374422 --->plink-------germline1: 3.96e-18 0.368359 6.36e-155 0.368043 0.979784 ( 0.001561) 0.611741 ( 0.010508) 0.980034 0.611236 --->plink-------germline2: 3.96e-18 0.215270 1.01e-131 0.215414 0.979784 ( 0.001561) 0.764370 ( 0.010669) 0.980034 0.764962 --->plink-------dash-----: 3.96e-18 0.605173 7.21e-168 0.605446 0.979784 ( 0.001561) 0.374337 ( 0.012630) 0.980034 0.374422 --->germline1---germline2: 3.96e-18 -0.152523 8.34e-146 -0.152628 0.611741 ( 0.010508) 0.764370 ( 0.010669) 0.611236 0.764962 --->germline1---dash-----: 3.96e-18 0.236531 3.84e-103 0.237404 0.611741 ( 0.010508) 0.374337 ( 0.012630) 0.611236 0.374422 --->germline2---dash-----: 3.96e-18 0.389843 3.03e-125 0.390032 0.764370 ( 0.010669) 0.374337 ( 0.012630) 0.764962 0.374422 ######FPR###### --->fabia-------beagle1--: 3.96e-18 -0.254518 3.17e-120 -0.254174 0.001348 ( 0.000989) 0.255522 ( 0.016162) 0.001179 0.255824 --->fabia-------beagle2--: 3.96e-18 -0.213219 1.74e-114 -0.212973 0.001348 ( 0.000989) 0.214321 ( 0.015450) 0.001179 0.214337 --->fabia-------plink----: 3.96e-18 -0.019142 4.26e-103 -0.019181 0.001348 ( 0.000989) 0.020529 ( 0.001600) 0.001179 0.020298 --->fabia-------germline1: 3.96e-18 -0.379158 1.07e-154 -0.378941 0.001348 ( 0.000989) 0.380289 ( 0.010892) 0.001179 0.381421 --->fabia-------germline2: 3.96e-18 -0.220321 6.41e-131 -0.220438 0.001348 ( 0.000989) 0.221786 ( 0.011070) 0.001179 0.221145 --->fabia-------dash-----: 3.96e-18 -0.986033 6.69e-273 -0.985943 0.001348 ( 0.000989) 0.987291 ( 0.001593) 0.001179 0.987262 --->beagle1-----beagle2--: 3.96e-18 0.040895 3.34e-65 0.041201 0.255522 ( 0.016162) 0.214321 ( 0.015450) 0.255824 0.214337 --->beagle1-----plink----: 3.96e-18 0.235150 3.66e-118 0.234993 0.255522 ( 0.016162) 0.020529 ( 0.001600) 0.255824 0.020298 --->beagle1-----germline1: 3.96e-18 -0.125233 7.29e-84 -0.124767 0.255522 ( 0.016162) 0.380289 ( 0.010892) 0.255824 0.381421 --->beagle1-----germline2: 1e-17 0.033716 4.56e-32 0.033736 0.255522 ( 0.016162) 0.221786 ( 0.011070) 0.255824 0.221145 --->beagle1-----dash-----: 3.96e-18 -0.731479 1.87e-165 -0.731769 0.255522 ( 0.016162) 0.987291 ( 0.001593) 0.255824 0.987262 --->beagle2-----plink----: 3.96e-18 0.194093 2.43e-111 0.193792 0.214321 ( 0.015450) 0.020529 ( 0.001600) 0.214337 0.020298 --->beagle2-----germline1: 3.96e-18 -0.166552 1.17e-96 -0.165968 0.214321 ( 0.015450) 0.380289 ( 0.010892) 0.214337 0.381421 --->beagle2-----germline2: 1.27e-04 -0.007900 1.37e-04 -0.007465 0.214321 ( 0.015450) 0.221786 ( 0.011070) 0.214337 0.221145 --->beagle2-----dash-----: 3.96e-18 -0.772753 1.21e-169 -0.772970 0.214321 ( 0.015450) 0.987291 ( 0.001593) 0.214337 0.987262 --->plink-------germline1: 3.96e-18 -0.360057 1.77e-152 -0.359760 0.020529 ( 0.001600) 0.380289 ( 0.010892) 0.020298 0.381421 --->plink-------germline2: 3.96e-18 -0.201044 2.9e-127 -0.201257 0.020529 ( 0.001600) 0.221786 ( 0.011070) 0.020298 0.221145 --->plink-------dash-----: 3.96e-18 -0.966738 2.89e-259 -0.966762 0.020529 ( 0.001600) 0.987291 ( 0.001593) 0.020298 0.987262 --->germline1---germline2: 3.96e-18 0.158388 5.63e-146 0.158503 0.380289 ( 0.010892) 0.221786 ( 0.011070) 0.381421 0.221145 --->germline1---dash-----: 3.96e-18 -0.606793 1.26e-173 -0.607002 0.380289 ( 0.010892) 0.987291 ( 0.001593) 0.381421 0.987262 --->germline2---dash-----: 3.96e-18 -0.765691 5.07e-183 -0.765504 0.221786 ( 0.011070) 0.987291 ( 0.001593) 0.221145 0.987262 ######FDR###### --->fabia-------beagle1--: 3.96e-18 -0.772992 3.61e-93 -0.768400 0.156861 ( 0.092362) 0.925261 ( 0.003984) 0.156400 0.925809 --->fabia-------beagle2--: 3.96e-18 -0.765534 1.54e-92 -0.761031 0.156861 ( 0.092362) 0.917892 ( 0.004346) 0.156400 0.918446 --->fabia-------plink----: 3.96e-18 -0.331418 1.18e-57 -0.327767 0.156861 ( 0.092362) 0.484627 ( 0.019011) 0.156400 0.481401 --->fabia-------germline1: 3.96e-18 -0.833330 9.74e-97 -0.829074 0.156861 ( 0.092362) 0.985935 ( 0.001602) 0.156400 0.985987 --->fabia-------germline2: 3.96e-18 -0.834361 7.95e-97 -0.830267 0.156861 ( 0.092362) 0.987128 ( 0.002137) 0.156400 0.987289 --->fabia-------dash-----: 3.96e-18 -0.473405 4.61e-72 -0.468802 0.156861 ( 0.092362) 0.625663 ( 0.012630) 0.156400 0.625578 --->beagle1-----beagle2--: 3.96e-18 0.007206 7.11e-47 0.007369 0.925261 ( 0.003984) 0.917892 ( 0.004346) 0.925809 0.918446 --->beagle1-----plink----: 3.96e-18 0.440922 1.45e-138 0.440634 0.925261 ( 0.003984) 0.484627 ( 0.019011) 0.925809 0.481401 --->beagle1-----germline1: 3.96e-18 -0.060394 1.3e-114 -0.060674 0.925261 ( 0.003984) 0.985935 ( 0.001602) 0.925809 0.985987 --->beagle1-----germline2: 3.96e-18 -0.061672 4.38e-115 -0.061867 0.925261 ( 0.003984) 0.987128 ( 0.002137) 0.925809 0.987289 --->beagle1-----dash-----: 3.96e-18 0.299929 2.49e-136 0.299598 0.925261 ( 0.003984) 0.625663 ( 0.012630) 0.925809 0.625578 --->beagle2-----plink----: 3.96e-18 0.433796 4.38e-137 0.433264 0.917892 ( 0.004346) 0.484627 ( 0.019011) 0.918446 0.481401 --->beagle2-----germline1: 3.96e-18 -0.067760 9.43e-117 -0.068043 0.917892 ( 0.004346) 0.985935 ( 0.001602) 0.918446 0.985987 --->beagle2-----germline2: 3.96e-18 -0.069082 1.41e-115 -0.069236 0.917892 ( 0.004346) 0.987128 ( 0.002137) 0.918446 0.987289 --->beagle2-----dash-----: 3.96e-18 0.292525 2.99e-135 0.292229 0.917892 ( 0.004346) 0.625663 ( 0.012630) 0.918446 0.625578 --->plink-------germline1: 3.96e-18 -0.501590 4.14e-142 -0.501307 0.484627 ( 0.019011) 0.985935 ( 0.001602) 0.481401 0.985987 --->plink-------germline2: 3.96e-18 -0.502682 1.18e-141 -0.502501 0.484627 ( 0.019011) 0.987128 ( 0.002137) 0.481401 0.987289 --->plink-------dash-----: 3.96e-18 -0.141732 2.21e-80 -0.141035 0.484627 ( 0.019011) 0.625663 ( 0.012630) 0.481401 0.625578 --->germline1---germline2: 6.38e-11 -0.001184 8.43e-13 -0.001193 0.985935 ( 0.001602) 0.987128 ( 0.002137) 0.985987 0.987289 --->germline1---dash-----: 3.96e-18 0.360494 3.89e-146 0.360272 0.985935 ( 0.001602) 0.625663 ( 0.012630) 0.985987 0.625578 --->germline2---dash-----: 3.96e-18 0.361670 4.4e-146 0.361465 0.987128 ( 0.002137) 0.625663 ( 0.012630) 0.987289 0.625578 ######specifity###### --->fabia-------beagle1--: 3.96e-18 0.254530 3.17e-120 0.254174 0.998652 ( 0.000989) 0.744478 ( 0.016162) 0.998821 0.744176 --->fabia-------beagle2--: 3.96e-18 0.213235 1.74e-114 0.212973 0.998652 ( 0.000989) 0.785679 ( 0.015450) 0.998821 0.785663 --->fabia-------plink----: 3.96e-18 0.019118 4.26e-103 0.019181 0.998652 ( 0.000989) 0.979471 ( 0.001600) 0.998821 0.979702 --->fabia-------germline1: 3.96e-18 0.379190 1.07e-154 0.378941 0.998652 ( 0.000989) 0.619711 ( 0.010892) 0.998821 0.618579 --->fabia-------germline2: 3.96e-18 0.220321 6.41e-131 0.220438 0.998652 ( 0.000989) 0.778214 ( 0.011070) 0.998821 0.778855 --->fabia-------dash-----: 3.96e-18 0.778521 4.1e-143 0.778494 0.998652 ( 0.000989) 0.220158 ( 0.029320) 0.998821 0.219036 --->beagle1-----beagle2--: 3.96e-18 -0.040923 3.34e-65 -0.041201 0.744478 ( 0.016162) 0.785679 ( 0.015450) 0.744176 0.785663 --->beagle1-----plink----: 3.96e-18 -0.235170 3.66e-118 -0.234993 0.744478 ( 0.016162) 0.979471 ( 0.001600) 0.744176 0.979702 --->beagle1-----germline1: 3.96e-18 0.125217 7.29e-84 0.124767 0.744478 ( 0.016162) 0.619711 ( 0.010892) 0.744176 0.618579 --->beagle1-----germline2: 1e-17 -0.033714 4.56e-32 -0.033736 0.744478 ( 0.016162) 0.778214 ( 0.011070) 0.744176 0.778855 --->beagle1-----dash-----: 3.96e-18 0.523760 3.27e-119 0.524320 0.744478 ( 0.016162) 0.220158 ( 0.029320) 0.744176 0.219036 --->beagle2-----plink----: 3.96e-18 -0.194076 2.43e-111 -0.193792 0.785679 ( 0.015450) 0.979471 ( 0.001600) 0.785663 0.979702 --->beagle2-----germline1: 3.96e-18 0.166534 1.17e-96 0.165968 0.785679 ( 0.015450) 0.619711 ( 0.010892) 0.785663 0.618579 --->beagle2-----germline2: 1.27e-04 0.007892 1.37e-04 0.007465 0.785679 ( 0.015450) 0.778214 ( 0.011070) 0.785663 0.778855 --->beagle2-----dash-----: 3.96e-18 0.565619 1.06e-122 0.565521 0.785679 ( 0.015450) 0.220158 ( 0.029320) 0.785663 0.219036 --->plink-------germline1: 3.96e-18 0.360055 1.77e-152 0.359760 0.979471 ( 0.001600) 0.619711 ( 0.010892) 0.979702 0.618579 --->plink-------germline2: 3.96e-18 0.201036 2.9e-127 0.201257 0.979471 ( 0.001600) 0.778214 ( 0.011070) 0.979702 0.778855 --->plink-------dash-----: 3.96e-18 0.759298 1.48e-141 0.759313 0.979471 ( 0.001600) 0.220158 ( 0.029320) 0.979702 0.219036 --->germline1---germline2: 3.96e-18 -0.158392 5.63e-146 -0.158503 0.619711 ( 0.010892) 0.778214 ( 0.011070) 0.618579 0.778855 --->germline1---dash-----: 3.96e-18 0.399367 3.08e-107 0.399553 0.619711 ( 0.010892) 0.220158 ( 0.029320) 0.618579 0.219036 --->germline2---dash-----: 3.96e-18 0.558085 8.05e-122 0.558056 0.778214 ( 0.011070) 0.220158 ( 0.029320) 0.778855 0.219036 ######sensitivity###### --->fabia-------beagle1--: 3.96e-18 -0.335586 6.15e-81 -0.334350 0.605316 ( 0.048923) 0.939666 ( 0.023978) 0.605058 0.943712 --->fabia-------beagle2--: 3.96e-18 -0.268322 2.56e-66 -0.267382 0.605316 ( 0.048923) 0.872698 ( 0.034154) 0.605058 0.877584 --->fabia-------plink----: 3.96e-18 -0.389189 1.11e-91 -0.388745 0.605316 ( 0.048923) 0.994061 ( 0.001778) 0.605058 0.994214 --->fabia-------germline1: 3.96e-18 0.357032 5.53e-86 0.357616 0.605316 ( 0.048923) 0.247700 ( 0.028684) 0.605058 0.247187 --->fabia-------germline2: 3.96e-18 0.472976 1.21e-95 0.473206 0.605316 ( 0.048923) 0.132110 ( 0.023298) 0.605058 0.129136 --->fabia-------dash-----: 3.96e-18 -611995 8.38e-170 -612254 0.605 ( 0.0489) 612255 ( 12372) 0.605 612143 --->beagle1-----beagle2--: 3.96e-18 0.065499 1.03e-53 0.066968 0.939666 ( 0.023978) 0.872698 ( 0.034154) 0.943712 0.877584 --->beagle1-----plink----: 3.96e-18 -0.053231 4.49e-41 -0.054395 0.939666 ( 0.023978) 0.994061 ( 0.001778) 0.943712 0.994214 --->beagle1-----germline1: 3.96e-18 0.691187 1.17e-128 0.691965 0.939666 ( 0.023978) 0.247700 ( 0.028684) 0.943712 0.247187 --->beagle1-----germline2: 3.96e-18 0.807863 2.09e-139 0.807556 0.939666 ( 0.023978) 0.132110 ( 0.023298) 0.943712 0.129136 --->beagle1-----dash-----: 3.96e-18 -611995 8.38e-170 -612254 0.94 ( 0.024) 612255 ( 12372) 0.944 612143 --->beagle2-----plink----: 3.96e-18 -0.118824 3.64e-58 -0.121363 0.872698 ( 0.034154) 0.994061 ( 0.001778) 0.877584 0.994214 --->beagle2-----germline1: 3.96e-18 0.625464 7.32e-115 0.624998 0.872698 ( 0.034154) 0.247700 ( 0.028684) 0.877584 0.247187 --->beagle2-----germline2: 3.96e-18 0.741752 1.9e-124 0.740588 0.872698 ( 0.034154) 0.132110 ( 0.023298) 0.877584 0.129136 --->beagle2-----dash-----: 3.96e-18 -611995 8.38e-170 -612254 0.873 ( 0.0342) 612255 ( 12372) 0.878 612143 --->plink-------germline1: 3.96e-18 0.746843 2.18e-142 0.746361 0.994061 ( 0.001778) 0.247700 ( 0.028684) 0.994214 0.247187 --->plink-------germline2: 3.96e-18 0.863397 4.42e-157 0.861951 0.994061 ( 0.001778) 0.132110 ( 0.023298) 0.994214 0.129136 --->plink-------dash-----: 3.96e-18 -611995 8.38e-170 -612254 0.994 ( 0.00178) 612255 ( 12372) 0.994 612143 --->germline1---germline2: 3.96e-18 0.114788 7.05e-79 0.115591 0.247700 ( 0.028684) 0.132110 ( 0.023298) 0.247187 0.129136 --->germline1---dash-----: 3.96e-18 -611996 8.38e-170 -612254 0.248 ( 0.0287) 612255 ( 12372) 0.247 612143 --->germline2---dash-----: 3.96e-18 -611996 8.38e-170 -612255 0.132 ( 0.0233) 612255 ( 12372) 0.129 612143 ######trueN###### --->fabia-------beagle1--: 3.96e-18 1247316 5.97e-189 1247022 1975546 ( 1974) 728524 ( 15848) 1975848 727992 --->fabia-------beagle2--: 3.96e-18 1206962 2.86e-189 1206704 1975546 ( 1974) 768842 ( 15152) 1975848 768924 --->fabia-------plink----: 3.96e-18 1017099 6.36e-261 1017066 1975546 ( 1974) 958481 ( 1614) 1975848 958552 --->fabia-------germline1: 3.96e-18 1369348 1.67e-210 1369116 1975546 ( 1974) 606431 ( 10672) 1975848 605264 --->fabia-------germline2: 3.96e-18 1213917 5.41e-205 1214010 1975546 ( 1974) 761537 ( 10845) 1975848 762332 --->fabia-------dash-----: 3.96e-18 1608988 1.92e-210 1609231 1975546 ( 1974) 366315 ( 12353) 1975848 366387 --->beagle1-----beagle2--: 3.96e-18 -40020 3.33e-65 -40318 728524 ( 15848) 768842 ( 15152) 727992 768924 --->beagle1-----plink----: 3.96e-18 -230113 3.44e-118 -229956 728524 ( 15848) 958481 ( 1614) 727992 958552 --->beagle1-----germline1: 3.96e-18 122537 7.4e-84 122094 728524 ( 15848) 606431 ( 10672) 727992 605264 --->beagle1-----germline2: 1e-17 -32974 4.54e-32 -33012 728524 ( 15848) 761537 ( 10845) 727992 762332 --->beagle1-----dash-----: 3.96e-18 361554 1.37e-125 362209 728524 ( 15848) 366315 ( 12353) 727992 366387 --->beagle2-----plink----: 3.96e-18 -189943 2.3e-111 -189638 768842 ( 15152) 958481 ( 1614) 768924 958552 --->beagle2-----germline1: 3.96e-18 162961 1.19e-96 162412 768842 ( 15152) 606431 ( 10672) 768924 605264 --->beagle2-----germline2: 1.29e-04 7743 1.37e-04 7306 768842 ( 15152) 761537 ( 10845) 768924 762332 --->beagle2-----dash-----: 3.96e-18 401957 1.67e-131 402527 768842 ( 15152) 366315 ( 12353) 768924 366387 --->plink-------germline1: 3.96e-18 352357 1.68e-152 352050 958481 ( 1614) 606431 ( 10672) 958552 605264 --->plink-------germline2: 3.96e-18 196748 2.85e-127 196944 958481 ( 1614) 761537 ( 10845) 958552 762332 --->plink-------dash-----: 3.96e-18 591878 9.06e-168 592166 958481 ( 1614) 366315 ( 12353) 958552 366387 --->germline1---germline2: 3.96e-18 -154972 5.41e-146 -155106 606431 ( 10672) 761537 ( 10845) 605264 762332 --->germline1---dash-----: 3.96e-18 239227 8.23e-104 240116 606431 ( 10672) 366315 ( 12353) 605264 366387 --->germline2---dash-----: 3.96e-18 395003 5.26e-126 395222 761537 ( 10845) 366315 ( 12353) 762332 366387 ######falseP###### --->fabia-------beagle1--: 3.96e-18 -247682 1.7e-119 -247379 2667 ( 1957) 250045 ( 15805) 2332 250260 --->fabia-------beagle2--: 3.96e-18 -207352 1.35e-113 -207061 2667 ( 1957) 209727 ( 15109) 2332 209772 --->fabia-------plink----: 3.96e-18 -17460 5.9e-87 -17422 2667 ( 1957) 20089 ( 1566) 2332 19864 --->fabia-------germline1: 3.96e-18 -369716 3.02e-154 -369472 2667 ( 1957) 372139 ( 10651) 2332 373182 --->fabia-------germline2: 3.96e-18 -214298 1.59e-130 -214366 2667 ( 1957) 217033 ( 10830) 2332 216455 --->fabia-------dash-----: 3.96e-18 -14246 7.17e-86 -14044 2667 ( 1957) 16711 ( 609) 2332 16700 --->beagle1-----beagle2--: 3.96e-18 40020 3.33e-65 40318 250045 ( 15805) 209727 ( 15109) 250260 209772 --->beagle1-----plink----: 3.96e-18 230114 3.44e-118 229956 250045 ( 15805) 20089 ( 1566) 250260 19864 --->beagle1-----germline1: 3.96e-18 -122536 7.4e-84 -122094 250045 ( 15805) 372139 ( 10651) 250260 373182 --->beagle1-----germline2: 1e-17 32973 4.54e-32 33012 250045 ( 15805) 217033 ( 10830) 250260 216455 --->beagle1-----dash-----: 3.96e-18 233604 7.92e-118 233335 250045 ( 15805) 16711 ( 609) 250260 16700 --->beagle2-----plink----: 3.96e-18 189944 2.3e-111 189638 209727 ( 15109) 20089 ( 1566) 209772 19864 --->beagle2-----germline1: 3.96e-18 -162961 1.19e-96 -162412 209727 ( 15109) 372139 ( 10651) 209772 373182 --->beagle2-----germline2: 1.29e-04 -7742 1.37e-04 -7306 209727 ( 15109) 217033 ( 10830) 209772 216455 --->beagle2-----dash-----: 3.96e-18 193316 1.31e-111 193017 209727 ( 15109) 16711 ( 609) 209772 16700 --->plink-------germline1: 3.96e-18 -352357 1.68e-152 -352050 20089 ( 1566) 372139 ( 10651) 19864 373182 --->plink-------germline2: 3.96e-18 -196748 2.85e-127 -196944 20089 ( 1566) 217033 ( 10830) 19864 216455 --->plink-------dash-----: 5.19e-18 3350 2.07e-35 3378 20089 ( 1566) 16711 ( 609) 19864 16700 --->germline1---germline2: 3.96e-18 154971 5.41e-146 155106 372139 ( 10651) 217033 ( 10830) 373182 216455 --->germline1---dash-----: 3.96e-18 355725 5.56e-152 355428 372139 ( 10651) 16711 ( 609) 373182 16700 --->germline2---dash-----: 3.96e-18 2e+05 9.74e-127 2e+05 217033 ( 10830) 16711 ( 609) 216455 16700 ######falseN###### --->fabia-------beagle1--: 3.96e-18 7341 5e-81 7307 8599 ( 1069) 1292 ( 512) 8588 1198 --->fabia-------beagle2--: 3.96e-18 5896 1.1e-66 5872 8599 ( 1069) 2727 ( 730) 8588 2638 --->fabia-------plink----: 3.96e-18 8484 1.42e-91 8472 8599 ( 1069) 127 ( 37.9) 8588 124 --->fabia-------germline1: 3.96e-18 -7513 9.17e-86 -7521 8599 ( 1069) 16120 ( 581) 8588 16108 --->fabia-------germline2: 3.95e-18 -9998 1.84e-95 -9998 8599 ( 1069) 18597 ( 470) 8588 18634 --->fabia-------dash-----: 3.96e-18 3889 6.71e-52 3879 8599 ( 1069) 4720 ( 645) 8588 4729 --->beagle1-----beagle2--: 3.96e-18 -1406 9.75e-54 -1435 1292 ( 512) 2727 ( 730) 1198 2638 --->beagle1-----plink----: 3.96e-18 1140 3.86e-41 1165 1292 ( 512) 127 ( 37.9) 1198 124 --->beagle1-----germline1: 3.96e-18 -14809 2.04e-129 -14828 1292 ( 512) 16120 ( 581) 1198 16108 --->beagle1-----germline2: 3.96e-18 -17300 1.21e-139 -17305 1292 ( 512) 18597 ( 470) 1198 18634 --->beagle1-----dash-----: 3.96e-18 -3418 6.25e-64 -3428 1292 ( 512) 4720 ( 645) 1198 4729 --->beagle2-----plink----: 3.96e-18 2547 3.03e-58 2600 2727 ( 730) 127 ( 37.9) 2638 124 --->beagle2-----germline1: 3.96e-18 -13404 2.66e-115 -13392 2727 ( 730) 16120 ( 581) 2638 16108 --->beagle2-----germline2: 3.96e-18 -15892 1.38e-124 -15870 2727 ( 730) 18597 ( 470) 2638 18634 --->beagle2-----dash-----: 6.8e-18 -2012 8.44e-38 -1992 2727 ( 730) 4720 ( 645) 2638 4729 --->plink-------germline1: 3.96e-18 -15989 1.01e-144 -15993 127 ( 37.9) 16120 ( 581) 124 16108 --->plink-------germline2: 3.96e-18 -18478 1.86e-159 -18470 127 ( 37.9) 18597 ( 470) 124 18634 --->plink-------dash-----: 3.96e-18 -4592 1.36e-86 -4593 127 ( 37.9) 4720 ( 645) 124 4729 --->germline1---germline2: 3.95e-18 -2459 1.61e-78 -2478 16120 ( 581) 18597 ( 470) 16108 18634 --->germline1---dash-----: 3.96e-18 11402 8.42e-101 11400 16120 ( 581) 4720 ( 645) 16108 4729 --->germline2---dash-----: 3.96e-18 13891 2.01e-115 13878 18597 ( 470) 4720 ( 645) 18634 4729 ######trueP###### --->fabia-------beagle1--: 3.96e-18 -6978 2.49e-78 -6950 13188 ( 1066) 20138 ( 582) 13202 20182 --->fabia-------beagle2--: 3.96e-18 -5547 6e-64 -5515 13188 ( 1066) 18703 ( 777) 13202 18734 --->fabia-------plink----: 3.96e-18 -8125 5.23e-89 -8115 13188 ( 1066) 21303 ( 236) 13202 21296 --->fabia-------germline1: 3.96e-18 7869 1.63e-86 7877 13188 ( 1066) 5311 ( 639) 13202 5302 --->fabia-------germline2: 3.96e-18 10350 5.21e-96 10355 13188 ( 1066) 2833 ( 513) 13202 2772 --->fabia-------dash-----: 3.96e-18 13184 2.58e-110 13188 13188 ( 1066) 0.00142 ( 0.0135) 13202 0 --->beagle1-----beagle2--: 3.96e-18 1406 9.75e-54 1435 20138 ( 582) 18703 ( 777) 20182 18734 --->beagle1-----plink----: 3.96e-18 -1140 3.86e-41 -1165 20138 ( 582) 21303 ( 236) 20182 21296 --->beagle1-----germline1: 3.96e-18 14809 2.04e-129 14828 20138 ( 582) 5311 ( 639) 20182 5302 --->beagle1-----germline2: 3.96e-18 17300 1.21e-139 17305 20138 ( 582) 2833 ( 513) 20182 2772 --->beagle1-----dash-----: 3.96e-18 20149 2.13e-154 20138 20138 ( 582) 0.00142 ( 0.0135) 20182 0 --->beagle2-----plink----: 3.96e-18 -2547 3.03e-58 -2600 18703 ( 777) 21303 ( 236) 18734 21296 --->beagle2-----germline1: 3.96e-18 13404 2.66e-115 13392 18703 ( 777) 5311 ( 639) 18734 5302 --->beagle2-----germline2: 3.96e-18 15892 1.38e-124 15870 18703 ( 777) 2833 ( 513) 18734 2772 --->beagle2-----dash-----: 3.96e-18 18748 7.68e-139 18703 18703 ( 777) 0.00142 ( 0.0135) 18734 0 --->plink-------germline1: 3.96e-18 15989 1.01e-144 15993 21303 ( 236) 5311 ( 639) 21296 5302 --->plink-------germline2: 3.96e-18 18478 1.86e-159 18470 21303 ( 236) 2833 ( 513) 21296 2772 --->plink-------dash-----: 3.95e-18 21301 1.31e-195 21303 21303 ( 236) 0.00142 ( 0.0135) 21296 0 --->germline1---germline2: 3.95e-18 2459 1.61e-78 2478 5311 ( 639) 2833 ( 513) 5302 2772 --->germline1---dash-----: 3.96e-18 5298 2.05e-93 5311 5311 ( 639) 0.00142 ( 0.0135) 5302 0 --->germline2---dash-----: 3.96e-18 2802 3.27e-76 2833 2833 ( 513) 0.00142 ( 0.0135) 2772 0 ######MatthewsSnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.621326 ( 0.053735) 0.000000 ( 0.000000) 0.633214 0.000000 --->fabia-------beagle2--: 3.96e-18 0.622716 5.32e-107 0.619746 0.621326 ( 0.053735) 0.001580 ( 0.010480) 0.633214 0.000000 --->fabia-------plink----: 2.17e-03 0.019544 4.82e-03 0.017276 0.621326 ( 0.053735) 0.604050 ( 0.039142) 0.633214 0.604882 --->fabia-------germline1: 3.96e-18 0.623497 4.76e-107 0.620462 0.621326 ( 0.053735) 0.000864 ( 0.006079) 0.633214 0.000000 --->fabia-------germline2: 3.96e-18 0.622994 1.89e-105 0.620663 0.621326 ( 0.053735) 0.000663 ( 0.020931) 0.633214 0.000000 --->fabia-------dash-----: 1.36e-12 0.058968 4.15e-16 0.057304 0.621326 ( 0.053735) 0.564022 ( 0.018460) 0.633214 0.565280 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.001580 ( 0.010480) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.604050 ( 0.039142) 0.000000 0.604882 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000864 ( 0.006079) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000663 ( 0.020931) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.564022 ( 0.018460) 0.000000 0.565280 --->beagle2-----plink----: 3.96e-18 -0.602984 1.89e-119 -0.602470 0.001580 ( 0.010480) 0.604050 ( 0.039142) 0.000000 0.604882 --->beagle2-----germline1: 1e+00 0.000000 5.59e-01 0.000716 0.001580 ( 0.010480) 0.000864 ( 0.006079) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 6.97e-01 0.000917 0.001580 ( 0.010480) 0.000663 ( 0.020931) 0.000000 0.000000 --->beagle2-----dash-----: 3.96e-18 -0.564283 1.05e-142 -0.562442 0.001580 ( 0.010480) 0.564022 ( 0.018460) 0.000000 0.565280 --->plink-------germline1: 3.96e-18 0.603104 5.2e-120 0.603186 0.604050 ( 0.039142) 0.000864 ( 0.006079) 0.604882 0.000000 --->plink-------germline2: 3.96e-18 0.601539 2.81e-113 0.603387 0.604050 ( 0.039142) 0.000663 ( 0.020931) 0.604882 0.000000 --->plink-------dash-----: 6.67e-12 0.039610 2.7e-14 0.040027 0.604050 ( 0.039142) 0.564022 ( 0.018460) 0.604882 0.565280 --->germline1---germline2: 1e+00 0.000000 9.2e-01 0.000201 0.000864 ( 0.006079) 0.000663 ( 0.020931) 0.000000 0.000000 --->germline1---dash-----: 3.96e-18 -0.564439 6.47e-146 -0.563159 0.000864 ( 0.006079) 0.564022 ( 0.018460) 0.000000 0.565280 --->germline2---dash-----: 3.96e-18 -0.564047 4.79e-130 -0.563360 0.000663 ( 0.020931) 0.564022 ( 0.018460) 0.000000 0.565280 ######F1Snps###### --->fabia-------beagle1--: 3.96e-18 0.159338 2.95e-67 0.160601 0.724583 ( 0.030768) 0.563982 ( 0.018440) 0.726113 0.565239 --->fabia-------beagle2--: 3.96e-18 0.159249 2.96e-67 0.160530 0.724583 ( 0.030768) 0.564052 ( 0.018448) 0.726113 0.566319 --->fabia-------plink----: 9.4e-14 -0.037105 5.23e-17 -0.037414 0.724583 ( 0.030768) 0.761996 ( 0.022831) 0.726113 0.762948 --->fabia-------germline1: 3.96e-18 0.159296 3.13e-67 0.160536 0.724583 ( 0.030768) 0.564046 ( 0.018427) 0.726113 0.565280 --->fabia-------germline2: 3.96e-18 0.159370 2.23e-67 0.160747 0.724583 ( 0.030768) 0.563835 ( 0.018429) 0.726113 0.565280 --->fabia-------dash-----: 3.96e-18 0.330184 4.06e-98 0.331481 0.724583 ( 0.030768) 0.393102 ( 0.017689) 0.726113 0.394000 --->beagle1-----beagle2--: 1.81e-01 -0.002595 1e+00 0.000000 0.563982 ( 0.018440) 0.564052 ( 0.018448) 0.565239 0.566319 --->beagle1-----plink----: 3.96e-18 -0.197564 2.39e-91 -0.198014 0.563982 ( 0.018440) 0.761996 ( 0.022831) 0.565239 0.762948 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.563982 ( 0.018440) 0.564046 ( 0.018427) 0.565239 0.565280 --->beagle1-----germline2: 1e+00 0.000000 3.51e-01 0.000147 0.563982 ( 0.018440) 0.563835 ( 0.018429) 0.565239 0.565280 --->beagle1-----dash-----: 3.96e-18 0.171095 3.39e-214 0.170880 0.563982 ( 0.018440) 0.393102 ( 0.017689) 0.565239 0.394000 --->beagle2-----plink----: 3.96e-18 -0.197523 2.17e-91 -0.197944 0.564052 ( 0.018448) 0.761996 ( 0.022831) 0.566319 0.762948 --->beagle2-----germline1: 1.76e-14 1.1e-05 1e+00 0.000000 0.564052 ( 0.018448) 0.564046 ( 0.018427) 0.566319 0.565280 --->beagle2-----germline2: 6.8e-09 -8.56e-06 1.87e-01 0.000217 0.564052 ( 0.018448) 0.563835 ( 0.018429) 0.566319 0.565280 --->beagle2-----dash-----: 3.96e-18 0.171110 2.17e-210 0.170950 0.564052 ( 0.018448) 0.393102 ( 0.017689) 0.566319 0.394000 --->plink-------germline1: 3.96e-18 0.197441 2.26e-91 0.197950 0.761996 ( 0.022831) 0.564046 ( 0.018427) 0.762948 0.565280 --->plink-------germline2: 3.96e-18 0.197709 5.03e-91 0.198161 0.761996 ( 0.022831) 0.563835 ( 0.018429) 0.762948 0.565280 --->plink-------dash-----: 3.96e-18 0.368433 1.68e-118 0.368894 0.761996 ( 0.022831) 0.393102 ( 0.017689) 0.762948 0.394000 --->germline1---germline2: 1e+00 0.000000 1.77e-01 0.000211 0.564046 ( 0.018427) 0.563835 ( 0.018429) 0.565280 0.565280 --->germline1---dash-----: 3.96e-18 0.171136 4.52e-216 0.170944 0.564046 ( 0.018427) 0.393102 ( 0.017689) 0.565280 0.394000 --->germline2---dash-----: 3.96e-18 0.171077 1.25e-204 0.170733 0.563835 ( 0.018429) 0.393102 ( 0.017689) 0.565280 0.394000 ######accuracySnps###### --->fabia-------beagle1--: 3.96e-18 0.424392 9.62e-111 0.424379 0.817284 ( 0.023753) 0.392905 ( 0.017753) 0.819150 0.393900 --->fabia-------beagle2--: 3.96e-18 0.424146 9.41e-111 0.424206 0.817284 ( 0.023753) 0.393078 ( 0.017797) 0.819150 0.394950 --->fabia-------plink----: 1.93e-17 0.063496 1.05e-33 0.062718 0.817284 ( 0.023753) 0.754566 ( 0.029661) 0.819150 0.756800 --->fabia-------germline1: 3.96e-18 0.424284 9.56e-111 0.424219 0.817284 ( 0.023753) 0.393065 ( 0.017722) 0.819150 0.394000 --->fabia-------germline2: 3.96e-18 0.424147 5.29e-111 0.424194 0.817284 ( 0.023753) 0.393090 ( 0.017594) 0.819150 0.394000 --->fabia-------dash-----: 3.96e-18 0.806295 9.66e-154 0.805025 0.817284 ( 0.023753) 0.012259 ( 0.000356) 0.819150 0.012242 --->beagle1-----beagle2--: 1.81e-01 -0.006358 1.6e-01 -0.000173 0.392905 ( 0.017753) 0.393078 ( 0.017797) 0.393900 0.394950 --->beagle1-----plink----: 3.96e-18 -0.361279 1.13e-101 -0.361661 0.392905 ( 0.017753) 0.754566 ( 0.029661) 0.393900 0.756800 --->beagle1-----germline1: 1e+00 0.000000 2.59e-04 -0.000160 0.392905 ( 0.017753) 0.393065 ( 0.017722) 0.393900 0.394000 --->beagle1-----germline2: 1e+00 0.000000 2.57e-01 -0.000185 0.392905 ( 0.017753) 0.393090 ( 0.017594) 0.393900 0.394000 --->beagle1-----dash-----: 3.96e-18 0.381350 4.99e-133 0.380646 0.392905 ( 0.017753) 0.012259 ( 0.000356) 0.393900 0.012242 --->beagle2-----plink----: 3.96e-18 -0.361123 9.84e-102 -0.361488 0.393078 ( 0.017797) 0.754566 ( 0.029661) 0.394950 0.756800 --->beagle2-----germline1: 4.49e-16 -8.61e-05 1e+00 0.000000 0.393078 ( 0.017797) 0.393065 ( 0.017722) 0.394950 0.394000 --->beagle2-----germline2: 2.83e-11 -0.000111 1e+00 0.000000 0.393078 ( 0.017797) 0.393090 ( 0.017594) 0.394950 0.394000 --->beagle2-----dash-----: 3.96e-18 0.381520 6.03e-133 0.380819 0.393078 ( 0.017797) 0.012259 ( 0.000356) 0.394950 0.012242 --->plink-------germline1: 3.96e-18 0.361139 1e-101 0.361501 0.754566 ( 0.029661) 0.393065 ( 0.017722) 0.756800 0.394000 --->plink-------germline2: 3.96e-18 0.361127 1.09e-101 0.361476 0.754566 ( 0.029661) 0.393090 ( 0.017594) 0.756800 0.394000 --->plink-------dash-----: 3.96e-18 0.742391 1.49e-140 0.742307 0.754566 ( 0.029661) 0.012259 ( 0.000356) 0.756800 0.012242 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.393065 ( 0.017722) 0.393090 ( 0.017594) 0.394000 0.394000 --->germline1---dash-----: 3.96e-18 0.381452 4.05e-133 0.380806 0.393065 ( 0.017722) 0.012259 ( 0.000356) 0.394000 0.012242 --->germline2---dash-----: 3.96e-18 0.381499 1.98e-133 0.380831 0.393090 ( 0.017594) 0.012259 ( 0.000356) 0.394000 0.012242 ######FPRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.011677 8.18e-129 -0.011657 0.000608 ( 0.000498) 0.012265 ( 0.000359) 0.000537 0.012244 --->fabia-------beagle2--: 3.96e-18 -0.011675 7.92e-129 -0.011653 0.000608 ( 0.000498) 0.012261 ( 0.000360) 0.000537 0.012223 --->fabia-------plink----: 3.96e-18 -0.004330 2.14e-82 -0.004331 0.000608 ( 0.000498) 0.004939 ( 6e-04) 0.000537 0.004883 --->fabia-------germline1: 3.96e-18 -0.011675 7.39e-129 -0.011653 0.000608 ( 0.000498) 0.012261 ( 0.000358) 0.000537 0.012242 --->fabia-------germline2: 3.96e-18 -0.011670 5.74e-129 -0.011646 0.000608 ( 0.000498) 0.012254 ( 0.000355) 0.000537 0.012232 --->fabia-------dash-----: 3.96e-18 -0.605693 6.98e-154 -0.606365 0.000608 ( 0.000498) 0.606973 ( 0.017744) 0.000537 0.606000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.012265 ( 0.000359) 0.012261 ( 0.000360) 0.012244 0.012223 --->beagle1-----plink----: 3.96e-18 0.007319 7.95e-102 0.007326 0.012265 ( 0.000359) 0.004939 ( 6e-04) 0.012244 0.004883 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.012265 ( 0.000359) 0.012261 ( 0.000358) 0.012244 0.012242 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.012265 ( 0.000359) 0.012254 ( 0.000355) 0.012244 0.012232 --->beagle1-----dash-----: 3.96e-18 -0.594059 6.18e-154 -0.594708 0.012265 ( 0.000359) 0.606973 ( 0.017744) 0.012244 0.606000 --->beagle2-----plink----: 3.96e-18 0.007314 6.89e-102 0.007322 0.012261 ( 0.000360) 0.004939 ( 6e-04) 0.012223 0.004883 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.012261 ( 0.000360) 0.012261 ( 0.000358) 0.012223 0.012242 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.012261 ( 0.000360) 0.012254 ( 0.000355) 0.012223 0.012232 --->beagle2-----dash-----: 3.96e-18 -0.594069 6.18e-154 -0.594712 0.012261 ( 0.000360) 0.606973 ( 0.017744) 0.012223 0.606000 --->plink-------germline1: 3.96e-18 -0.007316 7.07e-102 -0.007322 0.004939 ( 6e-04) 0.012261 ( 0.000358) 0.004883 0.012242 --->plink-------germline2: 3.96e-18 -0.007309 3.86e-102 -0.007315 0.004939 ( 6e-04) 0.012254 ( 0.000355) 0.004883 0.012232 --->plink-------dash-----: 3.96e-18 -0.601336 1.91e-153 -0.602034 0.004939 ( 6e-04) 0.606973 ( 0.017744) 0.004883 0.606000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.012261 ( 0.000358) 0.012254 ( 0.000355) 0.012242 0.012232 --->germline1---dash-----: 3.96e-18 -0.594058 6.2e-154 -0.594712 0.012261 ( 0.000358) 0.606973 ( 0.017744) 0.012242 0.606000 --->germline2---dash-----: 3.96e-18 -0.594083 6.34e-154 -0.594719 0.012254 ( 0.000355) 0.606973 ( 0.017744) 0.012232 0.606000 ######FDRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.507341 5.25e-85 -0.503809 0.103226 ( 0.072826) 0.607034 ( 0.017751) 0.099475 0.606039 --->fabia-------beagle2--: 3.96e-18 -0.507306 5.12e-85 -0.503740 0.103226 ( 0.072826) 0.606966 ( 0.017759) 0.099475 0.604989 --->fabia-------plink----: 3.96e-18 -0.282809 1.19e-61 -0.279793 0.103226 ( 0.072826) 0.383019 ( 0.029936) 0.099475 0.382655 --->fabia-------germline1: 3.96e-18 -0.507283 5.24e-85 -0.503746 0.103226 ( 0.072826) 0.606972 ( 0.017740) 0.099475 0.606000 --->fabia-------germline2: 3.96e-18 -0.507410 4.96e-85 -0.503816 0.103226 ( 0.072826) 0.607042 ( 0.017709) 0.099475 0.606000 --->fabia-------dash-----: 1.24e-17 0.102167 1.45e-25 0.103222 0.103226 ( 0.072826) 3.13e-06 ( 1.33e-05) 0.099475 0.000000 --->beagle1-----beagle2--: 1.81e-01 0.002441 1e+00 0.000000 0.607034 ( 0.017751) 0.606966 ( 0.017759) 0.606039 0.604989 --->beagle1-----plink----: 3.96e-18 0.223619 1.47e-88 0.224016 0.607034 ( 0.017751) 0.383019 ( 0.029936) 0.606039 0.382655 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.607034 ( 0.017751) 0.606972 ( 0.017740) 0.606039 0.606000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.607034 ( 0.017751) 0.607042 ( 0.017709) 0.606039 0.606000 --->beagle1-----dash-----: 3.96e-18 0.606347 6.27e-154 0.607031 0.607034 ( 0.017751) 3.13e-06 ( 1.33e-05) 0.606039 0.000000 --->beagle2-----plink----: 3.96e-18 0.223521 1.33e-88 0.223947 0.606966 ( 0.017759) 0.383019 ( 0.029936) 0.604989 0.382655 --->beagle2-----germline1: 1.77e-14 -3.32e-05 1e+00 0.000000 0.606966 ( 0.017759) 0.606972 ( 0.017740) 0.604989 0.606000 --->beagle2-----germline2: 9.64e-10 6.29e-05 1e+00 0.000000 0.606966 ( 0.017759) 0.607042 ( 0.017709) 0.604989 0.606000 --->beagle2-----dash-----: 3.96e-18 0.606337 6.61e-154 0.606963 0.606966 ( 0.017759) 3.13e-06 ( 1.33e-05) 0.604989 0.000000 --->plink-------germline1: 3.96e-18 -0.223522 1.41e-88 -0.223953 0.383019 ( 0.029936) 0.606972 ( 0.017740) 0.382655 0.606000 --->plink-------germline2: 3.96e-18 -0.223564 1.98e-88 -0.224023 0.383019 ( 0.029936) 0.607042 ( 0.017709) 0.382655 0.606000 --->plink-------dash-----: 3.96e-18 0.383196 9.2e-112 0.383015 0.383019 ( 0.029936) 3.13e-06 ( 1.33e-05) 0.382655 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.606972 ( 0.017740) 0.607042 ( 0.017709) 0.606000 0.606000 --->germline1---dash-----: 3.96e-18 0.606302 5.97e-154 0.606969 0.606972 ( 0.017740) 3.13e-06 ( 1.33e-05) 0.606000 0.000000 --->germline2---dash-----: 3.96e-18 0.606397 4.96e-154 0.607038 0.607042 ( 0.017709) 3.13e-06 ( 1.33e-05) 0.606000 0.000000 ######specifitySnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.011655 ( 0.000612) -2.02e-06 ( 0.000000) 0.011735 -2.02e-06 --->fabia-------beagle2--: 3.95e-18 0.011675 7.92e-129 0.011653 0.011655 ( 0.000612) 1.47e-06 ( 2.47e-05) 0.011735 -2.02e-06 --->fabia-------plink----: 3.96e-18 0.004325 2.14e-82 0.004331 0.011655 ( 0.000612) 0.007324 ( 0.000723) 0.011735 0.007274 --->fabia-------germline1: 3.95e-18 0.011676 7.39e-129 0.011653 0.011655 ( 0.000612) 1.21e-06 ( 8.53e-06) 0.011735 0.000000 --->fabia-------germline2: 3.95e-18 0.011670 5.74e-129 0.011646 0.011655 ( 0.000612) 8.73e-06 ( 2.56e-05) 0.011735 0.000000 --->fabia-------dash-----: 3.96e-18 -0.775660 5.3e-134 -0.774239 0.011655 ( 0.000612) 0.785894 ( 0.035646) 0.011735 0.788000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 -2.02e-06 ( 0.000000) 1.47e-06 ( 2.47e-05) -2.02e-06 -2.02e-06 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 -2.02e-06 ( 0.000000) 0.007324 ( 0.000723) -2.02e-06 0.007274 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 -2.02e-06 ( 0.000000) 1.21e-06 ( 8.53e-06) -2.02e-06 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 -2.02e-06 ( 0.000000) 8.73e-06 ( 2.56e-05) -2.02e-06 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 -2.02e-06 ( 0.000000) 0.785894 ( 0.035646) -2.02e-06 0.788000 --->beagle2-----plink----: 3.95e-18 -0.007316 6.89e-102 -0.007322 1.47e-06 ( 2.47e-05) 0.007324 ( 0.000723) -2.02e-06 0.007274 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.47e-06 ( 2.47e-05) 1.21e-06 ( 8.53e-06) -2.02e-06 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.47e-06 ( 2.47e-05) 8.73e-06 ( 2.56e-05) -2.02e-06 0.000000 --->beagle2-----dash-----: 3.95e-18 -0.787261 4.49e-135 -0.785893 1.47e-06 ( 2.47e-05) 0.785894 ( 0.035646) -2.02e-06 0.788000 --->plink-------germline1: 3.95e-18 0.007316 7.07e-102 0.007322 0.007324 ( 0.000723) 1.21e-06 ( 8.53e-06) 0.007274 0.000000 --->plink-------germline2: 3.96e-18 0.007308 3.86e-102 0.007315 0.007324 ( 0.000723) 8.73e-06 ( 2.56e-05) 0.007274 0.000000 --->plink-------dash-----: 3.96e-18 -0.779910 3.52e-134 -0.778570 0.007324 ( 0.000723) 0.785894 ( 0.035646) 0.007274 0.788000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.21e-06 ( 8.53e-06) 8.73e-06 ( 2.56e-05) 0.000000 0.000000 --->germline1---dash-----: 3.95e-18 -0.787264 4.5e-135 -0.785893 1.21e-06 ( 8.53e-06) 0.785894 ( 0.035646) 0.000000 0.788000 --->germline2---dash-----: 3.96e-18 -0.787244 4.55e-135 -0.785885 8.73e-06 ( 2.56e-05) 0.785894 ( 0.035646) 0.000000 0.788000 ######sensitivitySnps###### --->fabia-------beagle1--: 3.96e-18 -0.305744 5.47e-94 -0.305244 0.480766 ( 0.038147) 0.786010 ( 0.035506) 0.477700 0.788000 --->fabia-------beagle2--: 3.96e-18 -0.305744 5.47e-94 -0.305244 0.480766 ( 0.038147) 0.786010 ( 0.035506) 0.477700 0.788000 --->fabia-------plink----: 3.95e-18 -0.303953 6.81e-94 -0.303328 0.480766 ( 0.038147) 0.784094 ( 0.035268) 0.477700 0.785400 --->fabia-------germline1: 3.96e-18 -0.305744 5.47e-94 -0.305244 0.480766 ( 0.038147) 0.786010 ( 0.035506) 0.477700 0.788000 --->fabia-------germline2: 3.96e-18 -0.305105 9.12e-94 -0.304550 0.480766 ( 0.038147) 0.785316 ( 0.035676) 0.477700 0.788000 --->fabia-------dash-----: 1.76e-09 0.475048 1.07e-01 -1.069234 0.480766 ( 0.038147) 1.550000 ( 6.564944) 0.477700 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.786010 ( 0.035506) 0.786010 ( 0.035506) 0.788000 0.788000 --->beagle1-----plink----: 1.19e-16 0.001973 1.29e-21 0.001916 0.786010 ( 0.035506) 0.784094 ( 0.035268) 0.788000 0.785400 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.786010 ( 0.035506) 0.786010 ( 0.035506) 0.788000 0.788000 --->beagle1-----germline2: 1e+00 0.000000 3.55e-02 0.000694 0.786010 ( 0.035506) 0.785316 ( 0.035676) 0.788000 0.788000 --->beagle1-----dash-----: 2.97e-11 0.782752 2.48e-01 -0.763990 0.786010 ( 0.035506) 1.550000 ( 6.564944) 0.788000 0.000000 --->beagle2-----plink----: 1.19e-16 0.001973 1.29e-21 0.001916 0.786010 ( 0.035506) 0.784094 ( 0.035268) 0.788000 0.785400 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.786010 ( 0.035506) 0.786010 ( 0.035506) 0.788000 0.788000 --->beagle2-----germline2: 1e+00 0.000000 3.55e-02 0.000694 0.786010 ( 0.035506) 0.785316 ( 0.035676) 0.788000 0.788000 --->beagle2-----dash-----: 2.97e-11 0.782752 2.48e-01 -0.763990 0.786010 ( 0.035506) 1.550000 ( 6.564944) 0.788000 0.000000 --->plink-------germline1: 1.19e-16 -0.001973 1.29e-21 -0.001916 0.784094 ( 0.035268) 0.786010 ( 0.035506) 0.785400 0.788000 --->plink-------germline2: 3.43e-12 -0.001796 3.13e-04 -0.001222 0.784094 ( 0.035268) 0.785316 ( 0.035676) 0.785400 0.788000 --->plink-------dash-----: 2.97e-11 0.780838 2.47e-01 -0.765906 0.784094 ( 0.035268) 1.550000 ( 6.564944) 0.785400 0.000000 --->germline1---germline2: 1e+00 0.000000 3.55e-02 0.000694 0.786010 ( 0.035506) 0.785316 ( 0.035676) 0.788000 0.788000 --->germline1---dash-----: 2.97e-11 0.782752 2.48e-01 -0.763990 0.786010 ( 0.035506) 1.550000 ( 6.564944) 0.788000 0.000000 --->germline2---dash-----: 2.97e-11 0.782262 2.47e-01 -0.764684 0.785316 ( 0.035676) 1.550000 ( 6.564944) 0.788000 0.000000 ######trueNSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 5769 ( 303) -1 ( 0) 5809 -1 --->fabia-------beagle2--: 3.95e-18 5786 7.92e-129 5768 5769 ( 303) 0.73 ( 12.2) 5809 -1 --->fabia-------plink----: 3.95e-18 2152 2.14e-82 2144 5769 ( 303) 3625 ( 358) 5809 3600 --->fabia-------germline1: 3.95e-18 5786 7.39e-129 5768 5769 ( 303) 0.6 ( 4.22) 5809 0 --->fabia-------germline2: 3.95e-18 5782 5.74e-129 5765 5769 ( 303) 4.32 ( 12.6) 5809 0 --->fabia-------dash-----: 1.36e-17 -286 2.8e-21 -299 5769 ( 303) 6068 ( 176) 5809 6060 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 -1.000000 ( 0.000000) 0.730000 (12.229997) -1.000000 -1.000000 --->beagle1-----plink----: 1e+00 0 1e+00 0 -1 ( 0) 3625 ( 358) -1 3600 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 -1.000000 ( 0.000000) 0.600000 ( 4.221159) -1.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 -1.000000 ( 0.000000) 4.320000 (12.648216) -1.000000 0.000000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 -1 ( 0) 6068 ( 176) -1 6060 --->beagle2-----plink----: 3.95e-18 -3620 6.89e-102 -3624 0.73 ( 12.2) 3625 ( 358) -1 3600 --->beagle2-----germline1: 6.09e-18 -0.999939 9.21e-01 0.130000 0.730000 (12.229997) 0.600000 ( 4.221159) -1.000000 0.000000 --->beagle2-----germline2: 1.51e-16 -1.000067 4.91e-02 -3.590000 0.730000 (12.229997) 4.320000 (12.648216) -1.000000 0.000000 --->beagle2-----dash-----: 3.96e-18 -6061 4.01e-154 -6068 0.73 ( 12.2) 6068 ( 176) -1 6060 --->plink-------germline1: 3.95e-18 3620 7.07e-102 3625 3625 ( 358) 0.6 ( 4.22) 3600 0 --->plink-------germline2: 3.96e-18 3618 3.86e-102 3621 3625 ( 358) 4.32 ( 12.6) 3600 0 --->plink-------dash-----: 3.96e-18 -2442 7.84e-93 -2443 3625 ( 358) 6068 ( 176) 3600 6060 --->germline1---germline2: 1e+00 0.000000 2.75e-03 -3.720000 0.600000 ( 4.221159) 4.320000 (12.648216) 0.000000 0.000000 --->germline1---dash-----: 3.95e-18 -6062 2.8e-154 -6068 0.6 ( 4.22) 6068 ( 176) 0 6060 --->germline2---dash-----: 3.95e-18 -6058 1.18e-154 -6064 4.32 ( 12.6) 6068 ( 176) 0 6060 ######falsePSnps###### --->fabia-------beagle1--: 3.95e-18 -5787 8.18e-129 -5770 301 ( 246) 6071 ( 178) 266 6061 --->fabia-------beagle2--: 3.95e-18 -5786 7.92e-129 -5768 301 ( 246) 6069 ( 178) 266 6050 --->fabia-------plink----: 3.95e-18 -2152 2.14e-82 -2144 301 ( 246) 2445 ( 297) 266 2417 --->fabia-------germline1: 3.95e-18 -5786 7.39e-129 -5768 301 ( 246) 6069 ( 177) 266 6060 --->fabia-------germline2: 3.95e-18 -5782 5.74e-129 -5765 301 ( 246) 6066 ( 176) 266 6055 --->fabia-------dash-----: 1.24e-17 286 2.09e-21 300 301 ( 246) 0.58 ( 5.8) 266 0 --->beagle1-----beagle2--: 1.81e-01 61.4 1.6e-01 1.73 6071 ( 178) 6069 ( 178) 6061 6050 --->beagle1-----plink----: 3.95e-18 3621 7.95e-102 3626 6071 ( 178) 2445 ( 297) 6061 2417 --->beagle1-----germline1: 4.03e-23 1 2.59e-04 1.6 6071 ( 178) 6069 ( 177) 6061 6060 --->beagle1-----germline2: 7.62e-21 1 5.71e-05 5.32 6071 ( 178) 6066 ( 176) 6061 6055 --->beagle1-----dash-----: 3.95e-18 6064 4.82e-154 6070 6071 ( 178) 0.58 ( 5.8) 6061 0 --->beagle2-----plink----: 3.95e-18 3620 6.89e-102 3624 6069 ( 178) 2445 ( 297) 6050 2417 --->beagle2-----germline1: 6.09e-18 1 9.21e-01 -0.13 6069 ( 178) 6069 ( 177) 6050 6060 --->beagle2-----germline2: 1.51e-16 1 4.91e-02 3.59 6069 ( 178) 6066 ( 176) 6050 6055 --->beagle2-----dash-----: 3.95e-18 6061 6.31e-154 6069 6069 ( 178) 0.58 ( 5.8) 6050 0 --->plink-------germline1: 3.95e-18 -3620 7.07e-102 -3625 2445 ( 297) 6069 ( 177) 2417 6060 --->plink-------germline2: 3.96e-18 -3618 3.86e-102 -3621 2445 ( 297) 6066 ( 176) 2417 6055 --->plink-------dash-----: 3.96e-18 2443 6.91e-93 2444 2445 ( 297) 0.58 ( 5.8) 2417 0 --->germline1---germline2: 6.88e-04 26 2.75e-03 3.72 6069 ( 177) 6066 ( 176) 6060 6055 --->germline1---dash-----: 3.95e-18 6062 4.16e-154 6069 6069 ( 177) 0.58 ( 5.8) 6060 0 --->germline2---dash-----: 3.96e-18 6059 1.7e-154 6065 6066 ( 176) 0.58 ( 5.8) 6055 0 ######falseNSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 1526 ( 181) 0 ( 0) 1510 0 --->fabia-------beagle2--: 1e+00 0 1e+00 0 1526 ( 181) 0 ( 0) 1510 0 --->fabia-------plink----: 3.95e-18 1520 6.81e-94 1517 1526 ( 181) 9.58 ( 7.8) 1510 8.5 --->fabia-------germline1: 1e+00 0 1e+00 0 1526 ( 181) 0 ( 0) 1510 0 --->fabia-------germline2: 3.95e-18 1526 9.12e-94 1523 1526 ( 181) 3.47 ( 16.3) 1510 0 --->fabia-------dash-----: 3.95e-18 -2403 5.36e-111 -2403 1526 ( 181) 3929 ( 178) 1510 3940 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0 1e+00 0 0 ( 0) 9.58 ( 7.8) 0 8.5 --->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) 3.470000 (16.276931) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 0 ( 0) 3929 ( 178) 0 3940 --->beagle2-----plink----: 1e+00 0 1e+00 0 0 ( 0) 9.58 ( 7.8) 0 8.5 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 3.470000 (16.276931) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 0 ( 0) 3929 ( 178) 0 3940 --->plink-------germline1: 1e+00 0 1e+00 0 9.58 ( 7.8) 0 ( 0) 8.5 0 --->plink-------germline2: 3.41e-12 9 3.13e-04 6.11 9.58 ( 7.8) 3.47 ( 16.3) 8.5 0 --->plink-------dash-----: 3.96e-18 -3927 3.14e-135 -3920 9.58 ( 7.8) 3929 ( 178) 8.5 3940 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 3.470000 (16.276931) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 3929 ( 178) 0 3940 --->germline2---dash-----: 3.95e-18 -3933 9.12e-135 -3926 3.47 ( 16.3) 3929 ( 178) 0 3940 ######truePSnps###### --->fabia-------beagle1--: 3.95e-18 -1529 5.47e-94 -1526 2404 ( 191) 3930 ( 178) 2388 3940 --->fabia-------beagle2--: 3.95e-18 -1529 5.47e-94 -1526 2404 ( 191) 3930 ( 178) 2388 3940 --->fabia-------plink----: 3.95e-18 -1520 6.81e-94 -1517 2404 ( 191) 3920 ( 176) 2388 3927 --->fabia-------germline1: 3.95e-18 -1529 5.47e-94 -1526 2404 ( 191) 3930 ( 178) 2388 3940 --->fabia-------germline2: 3.95e-18 -1526 9.12e-94 -1523 2404 ( 191) 3927 ( 178) 2388 3940 --->fabia-------dash-----: 1e+00 0 1e+00 0 2404 ( 191) 0 ( 0) 2388 0 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 3930 ( 178) 3930 ( 178) 3940 3940 --->beagle1-----plink----: 1.18e-16 10 1.29e-21 9.58 3930 ( 178) 3920 ( 176) 3940 3927 --->beagle1-----germline1: 1e+00 0 1e+00 0 3930 ( 178) 3930 ( 178) 3940 3940 --->beagle1-----germline2: 1e+00 0 3.55e-02 3.47 3930 ( 178) 3927 ( 178) 3940 3940 --->beagle1-----dash-----: 1e+00 0 1e+00 0 3930 ( 178) 0 ( 0) 3940 0 --->beagle2-----plink----: 1.18e-16 10 1.29e-21 9.58 3930 ( 178) 3920 ( 176) 3940 3927 --->beagle2-----germline1: 1e+00 0 1e+00 0 3930 ( 178) 3930 ( 178) 3940 3940 --->beagle2-----germline2: 1e+00 0 3.55e-02 3.47 3930 ( 178) 3927 ( 178) 3940 3940 --->beagle2-----dash-----: 1e+00 0 1e+00 0 3930 ( 178) 0 ( 0) 3940 0 --->plink-------germline1: 1.18e-16 -10 1.29e-21 -9.58 3920 ( 176) 3930 ( 178) 3927 3940 --->plink-------germline2: 3.41e-12 -9 3.13e-04 -6.11 3920 ( 176) 3927 ( 178) 3927 3940 --->plink-------dash-----: 1e+00 0 1e+00 0 3920 ( 176) 0 ( 0) 3927 0 --->germline1---germline2: 1e+00 0 3.55e-02 3.47 3930 ( 178) 3927 ( 178) 3940 3940 --->germline1---dash-----: 1e+00 0 1e+00 0 3930 ( 178) 0 ( 0) 3940 0 --->germline2---dash-----: 1e+00 0 1e+00 0 3927 ( 178) 0 ( 0) 3940 0 ######MatthewsSample###### --->fabia-------beagle1--: 2.95e-03 -0.046970 1.62e-02 -0.038307 0.758549 ( 0.063193) 0.796856 ( 0.147882) 0.754186 0.810133 --->fabia-------beagle2--: 8.33e-01 -0.002971 7.81e-01 -0.004051 0.758549 ( 0.063193) 0.762599 ( 0.135576) 0.754186 0.762253 --->fabia-------plink----: 2.87e-07 -0.106838 3.69e-05 -0.084110 0.758549 ( 0.063193) 0.842659 ( 0.191022) 0.754186 0.889756 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.758549 ( 0.063193) 0.000000 ( 0.000000) 0.754186 0.000000 --->fabia-------germline2: 3.95e-18 0.757819 5.07e-109 0.759055 0.758549 ( 0.063193) -0.000506 ( 0.003576) 0.754186 0.000000 --->fabia-------dash-----: 3.96e-18 -0.217063 2.12e-55 -0.217134 0.758549 ( 0.063193) 0.975682 ( 0.009939) 0.754186 0.974359 --->beagle1-----beagle2--: 4.66e-03 0.046690 2.42e-02 0.034256 0.796856 ( 0.147882) 0.762599 ( 0.135576) 0.810133 0.762253 --->beagle1-----plink----: 3e-03 -0.071758 6.35e-02 -0.045803 0.796856 ( 0.147882) 0.842659 ( 0.191022) 0.810133 0.889756 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.796856 ( 0.147882) 0.000000 ( 0.000000) 0.810133 0.000000 --->beagle1-----germline2: 3.95e-18 0.807930 3.06e-75 0.797362 0.796856 ( 0.147882) -0.000506 ( 0.003576) 0.810133 0.000000 --->beagle1-----dash-----: 8.56e-17 -0.170638 7e-21 -0.178827 0.796856 ( 0.147882) 0.975682 ( 0.009939) 0.810133 0.974359 --->beagle2-----plink----: 9.22e-06 -0.101662 3.84e-04 -0.080059 0.762599 ( 0.135576) 0.842659 ( 0.191022) 0.762253 0.889756 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.762599 ( 0.135576) 0.000000 ( 0.000000) 0.762253 0.000000 --->beagle2-----germline2: 3.88e-18 0.762197 4.45e-77 0.763105 0.762599 ( 0.135576) -0.000506 ( 0.003576) 0.762253 0.000000 --->beagle2-----dash-----: 4.92e-17 -0.213411 1.47e-27 -0.213083 0.762599 ( 0.135576) 0.975682 ( 0.009939) 0.762253 0.974359 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.842659 ( 0.191022) 0.000000 ( 0.000000) 0.889756 0.000000 --->plink-------germline2: 9.38e-18 0.875659 7.35e-67 0.843165 0.842659 ( 0.191022) -0.000506 ( 0.003576) 0.889756 0.000000 --->plink-------dash-----: 2.83e-12 -0.101343 4.45e-10 -0.133024 0.842659 ( 0.191022) 0.975682 ( 0.009939) 0.889756 0.974359 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) -0.000506 ( 0.003576) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.975682 ( 0.009939) 0.000000 0.974359 --->germline2---dash-----: 3.06e-18 -0.976957 4.23e-198 -0.976188 -0.000506 ( 0.003576) 0.975682 ( 0.009939) 0.000000 0.974359 ######F1Sample###### --->fabia-------beagle1--: 3.96e-18 -0.065811 4.93e-44 -0.066174 0.923780 ( 0.026031) 0.989953 ( 0.006911) 0.923332 0.989583 --->fabia-------beagle2--: 4.6e-18 -0.058525 2.05e-38 -0.059145 0.923780 ( 0.026031) 0.982924 ( 0.010932) 0.923332 0.984042 --->fabia-------plink----: 3.96e-18 -0.069608 8.57e-46 -0.070149 0.923780 ( 0.026031) 0.993929 ( 0.005508) 0.923332 0.994764 --->fabia-------germline1: 4.89e-18 -0.051443 1.65e-33 -0.051902 0.923780 ( 0.026031) 0.975682 ( 0.009939) 0.923332 0.974359 --->fabia-------germline2: 5.35e-18 -0.051472 2.16e-33 -0.051796 0.923780 ( 0.026031) 0.975575 ( 0.010040) 0.923332 0.974359 --->fabia-------dash-----: 9.33e-12 -0.028912 5.34e-14 -0.028920 0.923780 ( 0.026031) 0.952700 ( 0.018848) 0.923332 0.950000 --->beagle1-----beagle2--: 1.03e-10 0.008024 8.8e-11 0.007029 0.989953 ( 0.006911) 0.982924 ( 0.010932) 0.989583 0.984042 --->beagle1-----plink----: 9.15e-07 -0.005235 7.9e-06 -0.003976 0.989953 ( 0.006911) 0.993929 ( 0.005508) 0.989583 0.994764 --->beagle1-----germline1: 8.56e-17 0.012721 2.25e-25 0.014271 0.989953 ( 0.006911) 0.975682 ( 0.009939) 0.989583 0.974359 --->beagle1-----germline2: 8.32e-17 0.014656 1.4e-25 0.014378 0.989953 ( 0.006911) 0.975575 ( 0.010040) 0.989583 0.974359 --->beagle1-----dash-----: 4.05e-18 0.036705 5.62e-38 0.037253 0.989953 ( 0.006911) 0.952700 ( 0.018848) 0.989583 0.950000 --->beagle2-----plink----: 8.23e-13 -0.010906 1.26e-14 -0.011005 0.982924 ( 0.010932) 0.993929 ( 0.005508) 0.984042 0.994764 --->beagle2-----germline1: 4.78e-05 0.007070 5.86e-06 0.007242 0.982924 ( 0.010932) 0.975682 ( 0.009939) 0.984042 0.974359 --->beagle2-----germline2: 3.24e-05 0.007108 4.03e-06 0.007349 0.982924 ( 0.010932) 0.975575 ( 0.010040) 0.984042 0.974359 --->beagle2-----dash-----: 6.03e-17 0.029217 2.25e-24 0.030224 0.982924 ( 0.010932) 0.952700 ( 0.018848) 0.984042 0.950000 --->plink-------germline1: 1.17e-17 0.017854 1.35e-37 0.018247 0.993929 ( 0.005508) 0.975682 ( 0.009939) 0.994764 0.974359 --->plink-------germline2: 1.17e-17 0.017877 3.35e-37 0.018354 0.993929 ( 0.005508) 0.975575 ( 0.010040) 0.994764 0.974359 --->plink-------dash-----: 3.77e-18 0.039863 1.98e-43 0.041229 0.993929 ( 0.005508) 0.952700 ( 0.018848) 0.994764 0.950000 --->germline1---germline2: 1e+00 0.000000 1.58e-01 0.000107 0.975682 ( 0.009939) 0.975575 ( 0.010040) 0.974359 0.974359 --->germline1---dash-----: 3.01e-18 0.022020 9.95e-46 0.022982 0.975682 ( 0.009939) 0.952700 ( 0.018848) 0.974359 0.950000 --->germline2---dash-----: 3.06e-18 0.021963 9.86e-46 0.022875 0.975575 ( 0.010040) 0.952700 ( 0.018848) 0.974359 0.950000 ######accuracySample###### --->fabia-------beagle1--: 4.05e-18 -0.090075 2.75e-43 -0.091000 0.890000 ( 0.035355) 0.981000 ( 0.012910) 0.890000 0.980000 --->fabia-------beagle2--: 6.68e-18 -0.077583 1.74e-35 -0.078200 0.890000 ( 0.035355) 0.968200 ( 0.020120) 0.890000 0.970000 --->fabia-------plink----: 3.86e-18 -0.097552 5.94e-46 -0.098400 0.890000 ( 0.035355) 0.988400 ( 0.010514) 0.890000 0.990000 --->fabia-------germline1: 3.68e-17 -0.062451 2.14e-27 -0.062700 0.890000 ( 0.035355) 0.952700 ( 0.018848) 0.890000 0.950000 --->fabia-------germline2: 4.27e-17 -0.062500 3.14e-27 -0.062500 0.890000 ( 0.035355) 0.952500 ( 0.019036) 0.890000 0.950000 --->fabia-------dash-----: 3.95e-18 0.889107 9.28e-141 0.888994 0.890000 ( 0.035355) 0.001006 ( 0.000401) 0.890000 0.001064 --->beagle1-----beagle2--: 3.54e-09 0.015031 1.76e-10 0.012800 0.981000 ( 0.012910) 0.968200 ( 0.020120) 0.980000 0.970000 --->beagle1-----plink----: 3e-05 -0.010023 1.21e-05 -0.007400 0.981000 ( 0.012910) 0.988400 ( 0.010514) 0.980000 0.990000 --->beagle1-----germline1: 7.5e-17 0.029939 2.4e-26 0.028300 0.981000 ( 0.012910) 0.952700 ( 0.018848) 0.980000 0.950000 --->beagle1-----germline2: 7.35e-17 0.029990 1.58e-26 0.028500 0.981000 ( 0.012910) 0.952500 ( 0.019036) 0.980000 0.950000 --->beagle1-----dash-----: 3.87e-18 0.979335 8.83e-188 0.979994 0.981000 ( 0.012910) 0.001006 ( 0.000401) 0.980000 0.001064 --->beagle2-----plink----: 1.94e-11 -0.024950 2.5e-14 -0.020200 0.968200 ( 0.020120) 0.988400 ( 0.010514) 0.970000 0.990000 --->beagle2-----germline1: 1.13e-06 0.019973 4.27e-07 0.015500 0.968200 ( 0.020120) 0.952700 ( 0.018848) 0.970000 0.950000 --->beagle2-----germline2: 6.97e-07 0.019958 2.88e-07 0.015700 0.968200 ( 0.020120) 0.952500 ( 0.019036) 0.970000 0.950000 --->beagle2-----dash-----: 3.92e-18 0.968792 1.3e-168 0.967194 0.968200 ( 0.020120) 0.001006 ( 0.000401) 0.970000 0.001064 --->plink-------germline1: 9.18e-18 0.035020 3.17e-38 0.035700 0.988400 ( 0.010514) 0.952700 ( 0.018848) 0.990000 0.950000 --->plink-------germline2: 9.21e-18 0.035011 7.73e-38 0.035900 0.988400 ( 0.010514) 0.952500 ( 0.019036) 0.990000 0.950000 --->plink-------dash-----: 3.77e-18 0.988923 1.36e-196 0.987394 0.988400 ( 0.010514) 0.001006 ( 0.000401) 0.990000 0.001064 --->germline1---germline2: 1e+00 0.000000 1.58e-01 2e-04 0.952700 ( 0.018848) 0.952500 ( 0.019036) 0.950000 0.950000 --->germline1---dash-----: 3.01e-18 0.953992 9.22e-170 0.951694 0.952700 ( 0.018848) 0.001006 ( 0.000401) 0.950000 0.001064 --->germline2---dash-----: 3.06e-18 0.953998 2.44e-169 0.951494 0.952500 ( 0.019036) 0.001006 ( 0.000401) 0.950000 0.001064 ######FPRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000164 ( 0.000181) 0.000000 0.000213 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 4.26e-06 ( 2.99e-05) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000247 ( 0.000224) 0.000000 0.000213 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.001006 ( 0.000401) 0.000000 0.001064 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.001006 ( 0.000401) 0.000000 0.001064 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.047300 ( 0.018848) 0.000000 0.050000 --->beagle1-----beagle2--: 2.7e-11 0.000267 3.15e-14 0.000160 0.000164 ( 0.000181) 4.26e-06 ( 2.99e-05) 0.000213 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000164 ( 0.000181) 0.000247 ( 0.000224) 0.000213 0.000213 --->beagle1-----germline1: 5.31e-18 -0.000832 9.92e-40 -0.000843 0.000164 ( 0.000181) 0.001006 ( 0.000401) 0.000213 0.001064 --->beagle1-----germline2: 5.31e-18 -0.000832 9.92e-40 -0.000843 0.000164 ( 0.000181) 0.001006 ( 0.000401) 0.000213 0.001064 --->beagle1-----dash-----: 3.76e-18 -0.044940 1.09e-44 -0.047136 0.000164 ( 0.000181) 0.047300 ( 0.018848) 0.000213 0.050000 --->beagle2-----plink----: 2.33e-13 -0.000322 4.84e-18 -0.000243 4.26e-06 ( 2.99e-05) 0.000247 ( 0.000224) 0.000000 0.000213 --->beagle2-----germline1: 3.05e-18 -0.001007 2.71e-44 -0.001002 4.26e-06 ( 2.99e-05) 0.001006 ( 0.000401) 0.000000 0.001064 --->beagle2-----germline2: 3.05e-18 -0.001007 2.71e-44 -0.001002 4.26e-06 ( 2.99e-05) 0.001006 ( 0.000401) 0.000000 0.001064 --->beagle2-----dash-----: 3.05e-18 -0.045008 1.06e-44 -0.047296 4.26e-06 ( 2.99e-05) 0.047300 ( 0.018848) 0.000000 0.050000 --->plink-------germline1: 1.13e-17 -0.000806 3.17e-38 -0.000760 0.000247 ( 0.000224) 0.001006 ( 0.000401) 0.000213 0.001064 --->plink-------germline2: 1.13e-17 -0.000806 3.17e-38 -0.000760 0.000247 ( 0.000224) 0.001006 ( 0.000401) 0.000213 0.001064 --->plink-------dash-----: 3.77e-18 -0.044852 1.05e-44 -0.047053 0.000247 ( 0.000224) 0.047300 ( 0.018848) 0.000213 0.050000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.001006 ( 0.000401) 0.001006 ( 0.000401) 0.001064 0.001064 --->germline1---dash-----: 3.01e-18 -0.044093 1.05e-44 -0.046294 0.001006 ( 0.000401) 0.047300 ( 0.018848) 0.001064 0.050000 --->germline2---dash-----: 3.01e-18 -0.044093 1.05e-44 -0.046294 0.001006 ( 0.000401) 0.047300 ( 0.018848) 0.001064 0.050000 ######FDRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.008081 ( 0.008893) 0.000000 0.010204 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000209 ( 0.001473) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.012010 ( 0.010839) 0.000000 0.010417 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.047300 ( 0.018848) 0.000000 0.050000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.047312 ( 0.018858) 0.000000 0.050000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1.14e-10 0.010955 2.66e-14 0.007871 0.008081 ( 0.008893) 0.000209 ( 0.001473) 0.010204 0.000000 --->beagle1-----plink----: 5.06e-02 -0.004946 3.52e-03 -0.003929 0.008081 ( 0.008893) 0.012010 ( 0.010839) 0.010204 0.010417 --->beagle1-----germline1: 3.94e-18 -0.039283 1.47e-39 -0.039219 0.008081 ( 0.008893) 0.047300 ( 0.018848) 0.010204 0.050000 --->beagle1-----germline2: 3.94e-18 -0.039318 1.49e-39 -0.039231 0.008081 ( 0.008893) 0.047312 ( 0.018858) 0.010204 0.050000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.008081 ( 0.008893) 0.000000 ( 0.000000) 0.010204 0.000000 --->beagle2-----plink----: 6.56e-13 -0.015575 3.99e-18 -0.011801 0.000209 ( 0.001473) 0.012010 ( 0.010839) 0.000000 0.010417 --->beagle2-----germline1: 3.05e-18 -0.045064 2.87e-44 -0.047091 0.000209 ( 0.001473) 0.047300 ( 0.018848) 0.000000 0.050000 --->beagle2-----germline2: 3.1e-18 -0.045032 2.93e-44 -0.047103 0.000209 ( 0.001473) 0.047312 ( 0.018858) 0.000000 0.050000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000209 ( 0.001473) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 1.17e-17 -0.034753 3.16e-38 -0.035290 0.012010 ( 0.010839) 0.047300 ( 0.018848) 0.010417 0.050000 --->plink-------germline2: 1.17e-17 -0.034740 3.3e-38 -0.035302 0.012010 ( 0.010839) 0.047312 ( 0.018858) 0.010417 0.050000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.012010 ( 0.010839) 0.000000 ( 0.000000) 0.010417 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.047300 ( 0.018848) 0.047312 ( 0.018858) 0.050000 0.050000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.047300 ( 0.018848) 0.000000 ( 0.000000) 0.050000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.047312 ( 0.018858) 0.000000 ( 0.000000) 0.050000 0.000000 ######specifitySample###### --->fabia-------beagle1--: 3.94e-18 0.003637 5.75e-90 0.003640 0.004482 ( 0.000460) 0.000843 ( 0.000385) 0.004433 0.000851 --->fabia-------beagle2--: 3.94e-18 0.003436 7.41e-90 0.003480 0.004482 ( 0.000460) 0.001002 ( 0.000404) 0.004433 0.001064 --->fabia-------plink----: 3.94e-18 0.003719 4.97e-93 0.003723 0.004482 ( 0.000460) 0.000760 ( 0.000362) 0.004433 0.000851 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.004482 ( 0.000460) 0.000000 ( 0.000000) 0.004433 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.004482 ( 0.000460) 0.000000 ( 0.000000) 0.004433 0.000000 --->fabia-------dash-----: 3.94e-18 -0.313605 1.25e-168 -0.313084 0.004482 ( 0.000460) 0.317567 ( 0.006283) 0.004433 0.316667 --->beagle1-----beagle2--: 1.55e-10 -0.000280 3.15e-14 -0.000160 0.000843 ( 0.000385) 0.001002 ( 0.000404) 0.000851 0.001064 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000843 ( 0.000385) 0.000760 ( 0.000362) 0.000851 0.000851 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000843 ( 0.000385) 0.000000 ( 0.000000) 0.000851 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000843 ( 0.000385) 0.000000 ( 0.000000) 0.000851 0.000000 --->beagle1-----dash-----: 3.76e-18 -0.317443 2.73e-168 -0.316724 0.000843 ( 0.000385) 0.317567 ( 0.006283) 0.000851 0.316667 --->beagle2-----plink----: 4.68e-13 0.000319 4.84e-18 0.000243 0.001002 ( 0.000404) 0.000760 ( 0.000362) 0.001064 0.000851 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.001002 ( 0.000404) 0.000000 ( 0.000000) 0.001064 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.001002 ( 0.000404) 0.000000 ( 0.000000) 0.001064 0.000000 --->beagle2-----dash-----: 3.05e-18 -0.317359 6.61e-168 -0.316565 0.001002 ( 0.000404) 0.317567 ( 0.006283) 0.001064 0.316667 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000760 ( 0.000362) 0.000000 ( 0.000000) 0.000851 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000760 ( 0.000362) 0.000000 ( 0.000000) 0.000851 0.000000 --->plink-------dash-----: 3.77e-18 -0.317528 1.42e-168 -0.316807 0.000760 ( 0.000362) 0.317567 ( 0.006283) 0.000851 0.316667 --->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) 0.317567 ( 0.006283) 0.000000 0.316667 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.317567 ( 0.006283) 0.000000 0.316667 ######sensitivitySample###### --->fabia-------beagle1--: 3.92e-18 0.134955 3.14e-72 0.134600 0.448400 ( 0.026903) 0.313800 ( 0.007566) 0.446667 0.313333 --->fabia-------beagle2--: 3.89e-18 0.141637 1.95e-73 0.141367 0.448400 ( 0.026903) 0.307033 ( 0.008875) 0.446667 0.306667 --->fabia-------plink----: 3.93e-18 0.130013 2.1e-71 0.130833 0.448400 ( 0.026903) 0.317567 ( 0.006283) 0.446667 0.316667 --->fabia-------germline1: 3.93e-18 0.130013 2.1e-71 0.130833 0.448400 ( 0.026903) 0.317567 ( 0.006283) 0.446667 0.316667 --->fabia-------germline2: 3.93e-18 0.130000 2.49e-71 0.130900 0.448400 ( 0.026903) 0.317500 ( 0.006345) 0.446667 0.316667 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.448400 ( 0.026903) 0.000000 ( 0.000000) 0.446667 0.000000 --->beagle1-----beagle2--: 2.95e-15 0.008318 7.25e-24 0.006767 0.313800 ( 0.007566) 0.307033 ( 0.008875) 0.313333 0.306667 --->beagle1-----plink----: 1.98e-12 -0.005012 1.03e-17 -0.003767 0.313800 ( 0.007566) 0.317567 ( 0.006283) 0.313333 0.316667 --->beagle1-----germline1: 1.98e-12 -0.005012 1.03e-17 -0.003767 0.313800 ( 0.007566) 0.317567 ( 0.006283) 0.313333 0.316667 --->beagle1-----germline2: 2.89e-12 -0.005047 1.17e-17 -0.003700 0.313800 ( 0.007566) 0.317500 ( 0.006345) 0.313333 0.316667 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.313800 ( 0.007566) 0.000000 ( 0.000000) 0.313333 0.000000 --->beagle2-----plink----: 2.34e-16 -0.011604 1.88e-28 -0.010533 0.307033 ( 0.008875) 0.317567 ( 0.006283) 0.306667 0.316667 --->beagle2-----germline1: 2.34e-16 -0.011604 1.88e-28 -0.010533 0.307033 ( 0.008875) 0.317567 ( 0.006283) 0.306667 0.316667 --->beagle2-----germline2: 2.34e-16 -0.011653 1.07e-28 -0.010467 0.307033 ( 0.008875) 0.317500 ( 0.006345) 0.306667 0.316667 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.307033 ( 0.008875) 0.000000 ( 0.000000) 0.306667 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.317567 ( 0.006283) 0.317567 ( 0.006283) 0.316667 0.316667 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.317567 ( 0.006283) 0.317500 ( 0.006345) 0.316667 0.316667 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.317567 ( 0.006283) 0.000000 ( 0.000000) 0.316667 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.317567 ( 0.006283) 0.317500 ( 0.006345) 0.316667 0.316667 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.317567 ( 0.006283) 0.000000 ( 0.000000) 0.316667 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.317500 ( 0.006345) 0.000000 ( 0.000000) 0.316667 0.000000 ######trueNSample###### --->fabia-------beagle1--: 3.59e-18 39.5 2.14e-99 39.5 43.5 ( 4.46) 3.96 ( 1.81) 43 4 --->fabia-------beagle2--: 3.7e-18 38.5 4.11e-100 38.8 43.5 ( 4.46) 4.71 ( 1.9) 43 5 --->fabia-------plink----: 3.66e-18 40 1.53e-100 39.9 43.5 ( 4.46) 3.57 ( 1.7) 43 4 --->fabia-------germline1: 1e+00 0 1e+00 0 43.5 ( 4.46) 0 ( 0) 43 0 --->fabia-------germline2: 1e+00 0 1e+00 0 43.5 ( 4.46) 0 ( 0) 43 0 --->fabia-------dash-----: 3.71e-18 38.5 4.75e-100 38.8 43.5 ( 4.46) 4.73 ( 1.88) 43 5 --->beagle1-----beagle2--: 2.29e-11 -1.5 3.15e-14 -0.75 3.96 ( 1.81) 4.71 ( 1.9) 4 5 --->beagle1-----plink----: 1e+00 0 2.93e-03 0.39 3.96 ( 1.81) 3.57 ( 1.7) 4 4 --->beagle1-----germline1: 1e+00 0 1e+00 0 3.96 ( 1.81) 0 ( 0) 4 0 --->beagle1-----germline2: 1e+00 0 1e+00 0 3.96 ( 1.81) 0 ( 0) 4 0 --->beagle1-----dash-----: 1.67e-11 -1.5 1.31e-14 -0.77 3.96 ( 1.81) 4.73 ( 1.88) 4 5 --->beagle2-----plink----: 2.33e-13 1.5 4.84e-18 1.14 4.71 ( 1.9) 3.57 ( 1.7) 5 4 --->beagle2-----germline1: 1e+00 0 1e+00 0 4.71 ( 1.9) 0 ( 0) 5 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 4.71 ( 1.9) 0 ( 0) 5 0 --->beagle2-----dash-----: 1e+00 0 1.58e-01 -0.02 4.71 ( 1.9) 4.73 ( 1.88) 5 5 --->plink-------germline1: 1e+00 0 1e+00 0 3.57 ( 1.7) 0 ( 0) 4 0 --->plink-------germline2: 1e+00 0 1e+00 0 3.57 ( 1.7) 0 ( 0) 4 0 --->plink-------dash-----: 9.46e-14 -1.5 6.2e-19 -1.16 3.57 ( 1.7) 4.73 ( 1.88) 4 5 --->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) 4.73 ( 1.88) 0 5 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 4.73 ( 1.88) 0 5 ######falsePSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.770000 ( 0.851084) 0.000000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.020000 ( 0.140705) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 1.160000 ( 1.051406) 0.000000 1.000000 --->fabia-------germline1: 1e+00 0 1e+00 0 0 ( 0) 4.73 ( 1.88) 0 5 --->fabia-------germline2: 1e+00 0 1e+00 0 0 ( 0) 4.73 ( 1.88) 0 5 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 2.29e-11 1.499971 3.15e-14 0.750000 0.770000 ( 0.851084) 0.020000 ( 0.140705) 1.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 2.93e-03 -0.390000 0.770000 ( 0.851084) 1.160000 ( 1.051406) 1.000000 1.000000 --->beagle1-----germline1: 4.09e-18 -4 9.92e-40 -3.96 0.77 ( 0.851) 4.73 ( 1.88) 1 5 --->beagle1-----germline2: 4.09e-18 -4 9.92e-40 -3.96 0.77 ( 0.851) 4.73 ( 1.88) 1 5 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.770000 ( 0.851084) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle2-----plink----: 2.33e-13 -1.500045 4.84e-18 -1.140000 0.020000 ( 0.140705) 1.160000 ( 1.051406) 0.000000 1.000000 --->beagle2-----germline1: 2.98e-18 -4.5 2.71e-44 -4.71 0.02 ( 0.141) 4.73 ( 1.88) 0 5 --->beagle2-----germline2: 2.98e-18 -4.5 2.71e-44 -4.71 0.02 ( 0.141) 4.73 ( 1.88) 0 5 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.020000 ( 0.140705) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 8.39e-18 -3.5 3.17e-38 -3.57 1.16 ( 1.05) 4.73 ( 1.88) 1 5 --->plink-------germline2: 8.39e-18 -3.5 3.17e-38 -3.57 1.16 ( 1.05) 4.73 ( 1.88) 1 5 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 1.160000 ( 1.051406) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline1---germline2: 1e+00 0 1e+00 0 4.73 ( 1.88) 4.73 ( 1.88) 5 5 --->germline1---dash-----: 1e+00 0 1e+00 0 4.73 ( 1.88) 0 ( 0) 5 0 --->germline2---dash-----: 1e+00 0 1e+00 0 4.73 ( 1.88) 0 ( 0) 5 0 ######falseNSample###### --->fabia-------beagle1--: 3.85e-18 21 3.08e-50 20.9 22 ( 7.07) 1.13 ( 1.08) 22 1 --->fabia-------beagle2--: 5.64e-18 19 1.2e-45 18.8 22 ( 7.07) 3.16 ( 2.02) 22 3 --->fabia-------plink----: 1e+00 0 1e+00 0 22 ( 7.07) 0 ( 0) 22 0 --->fabia-------germline1: 1e+00 0 1e+00 0 22 ( 7.07) 0 ( 0) 22 0 --->fabia-------germline2: 3.86e-18 22 7.32e-53 22 22 ( 7.07) 0.02 ( 0.141) 22 0 --->fabia-------dash-----: 3.87e-18 -73.5 2.64e-102 -73.3 22 ( 7.07) 95.3 ( 1.88) 22 95 --->beagle1-----beagle2--: 2.25e-15 -2.5 7.25e-24 -2.03 1.13 ( 1.08) 3.16 ( 2.02) 1 3 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 1.130000 ( 1.079235) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 1.130000 ( 1.079235) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle1-----germline2: 1.4e-12 1.500006 1.17e-17 1.110000 1.130000 ( 1.079235) 0.020000 ( 0.140705) 1.000000 0.000000 --->beagle1-----dash-----: 3.25e-18 -94.5 3.26e-162 -94.1 1.13 ( 1.08) 95.3 ( 1.88) 1 95 --->beagle2-----plink----: 1e+00 0 1e+00 0 3.16 ( 2.02) 0 ( 0) 3 0 --->beagle2-----germline1: 1e+00 0 1e+00 0 3.16 ( 2.02) 0 ( 0) 3 0 --->beagle2-----germline2: 2.01e-16 3.5 1.07e-28 3.14 3.16 ( 2.02) 0.02 ( 0.141) 3 0 --->beagle2-----dash-----: 3.5e-18 -92 2.02e-154 -92.1 3.16 ( 2.02) 95.3 ( 1.88) 3 95 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.020000 ( 0.140705) 0.000000 0.000000 --->plink-------dash-----: 1e+00 0 1e+00 0 0 ( 0) 95.3 ( 1.88) 0 95 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.020000 ( 0.140705) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 95.3 ( 1.88) 0 95 --->germline2---dash-----: 3.03e-18 -95.5 2.81e-170 -95.2 0.02 ( 0.141) 95.3 ( 1.88) 0 95 ######truePSample###### --->fabia-------beagle1--: 3.87e-18 40.5 3.14e-72 40.4 135 ( 8.07) 94.1 ( 2.27) 134 94 --->fabia-------beagle2--: 3.83e-18 42.5 1.95e-73 42.4 135 ( 8.07) 92.1 ( 2.66) 134 92 --->fabia-------plink----: 3.87e-18 39 2.1e-71 39.2 135 ( 8.07) 95.3 ( 1.88) 134 95 --->fabia-------germline1: 3.87e-18 39 2.1e-71 39.2 135 ( 8.07) 95.3 ( 1.88) 134 95 --->fabia-------germline2: 3.87e-18 39 2.49e-71 39.3 135 ( 8.07) 95.2 ( 1.9) 134 95 --->fabia-------dash-----: 3.91e-18 -525 3.12e-167 -525 135 ( 8.07) 659 ( 9.38) 134 661 --->beagle1-----beagle2--: 2.25e-15 2.5 7.25e-24 2.03 94.1 ( 2.27) 92.1 ( 2.66) 94 92 --->beagle1-----plink----: 9.23e-13 -1.5 1.03e-17 -1.13 94.1 ( 2.27) 95.3 ( 1.88) 94 95 --->beagle1-----germline1: 9.23e-13 -1.5 1.03e-17 -1.13 94.1 ( 2.27) 95.3 ( 1.88) 94 95 --->beagle1-----germline2: 1.4e-12 -1.5 1.17e-17 -1.11 94.1 ( 2.27) 95.2 ( 1.9) 94 95 --->beagle1-----dash-----: 3.86e-18 -566 3.74e-175 -565 94.1 ( 2.27) 659 ( 9.38) 94 661 --->beagle2-----plink----: 2.02e-16 -3.5 1.87e-28 -3.16 92.1 ( 2.66) 95.3 ( 1.88) 92 95 --->beagle2-----germline1: 2.02e-16 -3.5 1.87e-28 -3.16 92.1 ( 2.66) 95.3 ( 1.88) 92 95 --->beagle2-----germline2: 2.01e-16 -3.5 1.07e-28 -3.14 92.1 ( 2.66) 95.2 ( 1.9) 92 95 --->beagle2-----dash-----: 3.89e-18 -568 5.22e-175 -567 92.1 ( 2.66) 659 ( 9.38) 92 661 --->plink-------germline1: 1e+00 0 1e+00 0 95.3 ( 1.88) 95.3 ( 1.88) 95 95 --->plink-------germline2: 1e+00 0 1.58e-01 0.02 95.3 ( 1.88) 95.2 ( 1.9) 95 95 --->plink-------dash-----: 3.87e-18 -565 2.01e-175 -564 95.3 ( 1.88) 659 ( 9.38) 95 661 --->germline1---germline2: 1e+00 0 1.58e-01 0.02 95.3 ( 1.88) 95.2 ( 1.9) 95 95 --->germline1---dash-----: 3.87e-18 -565 2.01e-175 -564 95.3 ( 1.88) 659 ( 9.38) 95 661 --->germline2---dash-----: 3.86e-18 -565 2.39e-175 -564 95.2 ( 1.9) 659 ( 9.38) 95 661