Results: Wilcoxon-Rank-Sum Wilcoxon-median t-test t-test-mean mean1 (std) mean2 (std) median1 median2 ######Matthews###### --->fabia-------beagle1--: 8.87e-17 0.718984 1.15e-34 0.621725 0.661302 (0.333263) 0.039577 (0.049742) 0.824715 0.034595 --->fabia-------beagle2--: 4.54e-17 0.699463 1.68e-33 0.615317 0.661302 (0.333263) 0.045985 (0.082675) 0.824715 -0.002404 --->fabia-------plink----: 1.03e-02 0.146886 8.82e-02 0.055970 0.661302 (0.333263) 0.605332 (0.064391) 0.824715 0.604472 --->fabia-------germline1: 5.86e-16 0.730572 1.21e-34 0.630050 0.661302 (0.333263) 0.031253 (0.012384) 0.824715 0.034750 --->fabia-------germline2: 5.86e-16 0.734490 5.65e-35 0.633956 0.661302 (0.333263) 0.027346 (0.016962) 0.824715 0.028650 --->fabia-------dash-----: 5.86e-16 0.755518 5.38e-36 0.655655 0.661302 (0.333263) 0.005647 (0.001611) 0.824715 0.006109 --->beagle1-----beagle2--: 8.75e-01 -0.000875 2.76e-01 -0.006408 0.039577 (0.049742) 0.045985 (0.082675) 0.034595 -0.002404 --->beagle1-----plink----: 3.96e-18 -0.567777 7.13e-87 -0.565755 0.039577 (0.049742) 0.605332 (0.064391) 0.034595 0.604472 --->beagle1-----germline1: 3.52e-01 0.005380 1.12e-01 0.008325 0.039577 (0.049742) 0.031253 (0.012384) 0.034595 0.034750 --->beagle1-----germline2: 1.38e-01 0.008359 2.33e-02 0.012231 0.039577 (0.049742) 0.027346 (0.016962) 0.034595 0.028650 --->beagle1-----dash-----: 2.72e-07 0.029032 7.67e-10 0.033930 0.039577 (0.049742) 0.005647 (0.001611) 0.034595 0.006109 --->beagle2-----plink----: 3.96e-18 -0.567502 5.17e-76 -0.559347 0.045985 (0.082675) 0.605332 (0.064391) -0.002404 0.604472 --->beagle2-----germline1: 9.27e-01 0.000976 8.03e-02 0.014733 0.045985 (0.082675) 0.031253 (0.012384) -0.002404 0.034750 --->beagle2-----germline2: 8.78e-01 0.002969 2.82e-02 0.018639 0.045985 (0.082675) 0.027346 (0.016962) -0.002404 0.028650 --->beagle2-----dash-----: 3.87e-01 0.023607 4.15e-06 0.040338 0.045985 (0.082675) 0.005647 (0.001611) -0.002404 0.006109 --->plink-------germline1: 3.96e-18 0.573981 8.7e-96 0.574080 0.605332 (0.064391) 0.031253 (0.012384) 0.604472 0.034750 --->plink-------germline2: 3.96e-18 0.577521 2.79e-97 0.577986 0.605332 (0.064391) 0.027346 (0.016962) 0.604472 0.028650 --->plink-------dash-----: 3.96e-18 0.599573 2.69e-98 0.599685 0.605332 (0.064391) 0.005647 (0.001611) 0.604472 0.006109 --->germline1---germline2: 1.29e-02 0.003302 3.37e-03 0.003907 0.031253 (0.012384) 0.027346 (0.016962) 0.034750 0.028650 --->germline1---dash-----: 6.22e-18 0.026993 4.03e-42 0.025605 0.031253 (0.012384) 0.005647 (0.001611) 0.034750 0.006109 --->germline2---dash-----: 5.39e-16 0.022262 2.43e-24 0.021699 0.027346 (0.016962) 0.005647 (0.001611) 0.028650 0.006109 ######F1###### --->fabia-------beagle1--: 5.89e-16 0.767363 9.14e-35 0.630178 0.648381 (0.334816) 0.018203 (0.019884) 0.816415 0.015768 --->fabia-------beagle2--: 1.04e-15 0.750963 5.11e-33 0.608081 0.648381 (0.334816) 0.040301 (0.071790) 0.816415 0.000000 --->fabia-------plink----: 7.99e-03 0.186082 2.49e-03 0.102218 0.648381 (0.334816) 0.546164 (0.076415) 0.816415 0.544188 --->fabia-------germline1: 5.86e-16 0.736059 3.84e-35 0.642529 0.648381 (0.334816) 0.005852 (0.001303) 0.816415 0.006165 --->fabia-------germline2: 5.86e-16 0.735165 4.03e-35 0.641716 0.648381 (0.334816) 0.006665 (0.002447) 0.816415 0.006723 --->fabia-------dash-----: 3.2e-02 0.129164 3.16e-01 0.033775 0.648381 (0.334816) 0.614607 (0.011052) 0.816415 0.614401 --->beagle1-----beagle2--: 1.53e-02 -0.021904 4.63e-04 -0.022097 0.018203 (0.019884) 0.040301 (0.071790) 0.015768 0.000000 --->beagle1-----plink----: 3.96e-18 -0.525840 7.89e-85 -0.527960 0.018203 (0.019884) 0.546164 (0.076415) 0.015768 0.544188 --->beagle1-----germline1: 1.06e-06 0.010683 1.47e-08 0.012351 0.018203 (0.019884) 0.005852 (0.001303) 0.015768 0.006165 --->beagle1-----germline2: 3.85e-06 0.009689 1.14e-07 0.011538 0.018203 (0.019884) 0.006665 (0.002447) 0.015768 0.006723 --->beagle1-----dash-----: 3.96e-18 -0.597243 1.18e-143 -0.596403 0.018203 (0.019884) 0.614607 (0.011052) 0.015768 0.614401 --->beagle2-----plink----: 3.96e-18 -0.510346 1.47e-72 -0.505863 0.040301 (0.071790) 0.546164 (0.076415) 0.000000 0.544188 --->beagle2-----germline1: 4.93e-01 0.013949 5.7e-06 0.034448 0.040301 (0.071790) 0.005852 (0.001303) 0.000000 0.006165 --->beagle2-----germline2: 5.44e-01 0.013995 8.84e-06 0.033635 0.040301 (0.071790) 0.006665 (0.002447) 0.000000 0.006723 --->beagle2-----dash-----: 3.96e-18 -0.594151 3.48e-91 -0.574306 0.040301 (0.071790) 0.614607 (0.011052) 0.000000 0.614401 --->plink-------germline1: 3.96e-18 0.538275 1.46e-86 0.540311 0.546164 (0.076415) 0.005852 (0.001303) 0.544188 0.006165 --->plink-------germline2: 3.96e-18 0.537606 1.13e-86 0.539499 0.546164 (0.076415) 0.006665 (0.002447) 0.544188 0.006723 --->plink-------dash-----: 1.43e-11 -0.071497 2.35e-14 -0.068443 0.546164 (0.076415) 0.614607 (0.011052) 0.544188 0.614401 --->germline1---germline2: 3.5e-05 -0.000825 2.44e-05 -0.000813 0.005852 (0.001303) 0.006665 (0.002447) 0.006165 0.006723 --->germline1---dash-----: 3.96e-18 -0.608290 3.39e-174 -0.608754 0.005852 (0.001303) 0.614607 (0.011052) 0.006165 0.614401 --->germline2---dash-----: 3.96e-18 -0.607513 1.06e-173 -0.607942 0.006665 (0.002447) 0.614607 (0.011052) 0.006723 0.614401 ######accuracy###### --->fabia-------beagle1--: 3.96e-18 0.033317 9.38e-48 0.033638 0.999639 (0.000257) 0.966001 (0.012352) 0.999750 0.966568 --->fabia-------beagle2--: 3.96e-18 0.007645 1.68e-23 0.009053 0.999639 (0.000257) 0.990587 (0.006869) 0.999750 0.992672 --->fabia-------plink----: 3.96e-18 0.002046 1.9e-51 0.002033 0.999639 (0.000257) 0.997606 (0.000672) 0.999750 0.997532 --->fabia-------germline1: 3.96e-18 0.390594 5.03e-165 0.390366 0.999639 (0.000257) 0.609274 (0.008842) 0.999750 0.609375 --->fabia-------germline2: 3.96e-18 0.231664 1.39e-137 0.231341 0.999639 (0.000257) 0.768298 (0.009923) 0.999750 0.768771 --->fabia-------dash-----: 3.96e-18 0.613667 1.85e-174 0.614041 0.999639 (0.000257) 0.385598 (0.011103) 0.999750 0.385547 --->beagle1-----beagle2--: 5.66e-17 -0.025984 6.26e-34 -0.024585 0.966001 (0.012352) 0.990587 (0.006869) 0.966568 0.992672 --->beagle1-----plink----: 3.96e-18 -0.031287 1.28e-45 -0.031605 0.966001 (0.012352) 0.997606 (0.000672) 0.966568 0.997532 --->beagle1-----germline1: 3.96e-18 0.356573 2.07e-140 0.356727 0.966001 (0.012352) 0.609274 (0.008842) 0.966568 0.609375 --->beagle1-----germline2: 3.96e-18 0.197611 1.21e-112 0.197703 0.966001 (0.012352) 0.768298 (0.009923) 0.966568 0.768771 --->beagle1-----dash-----: 3.96e-18 0.580240 2.09e-151 0.580403 0.966001 (0.012352) 0.385598 (0.011103) 0.966568 0.385547 --->beagle2-----plink----: 5.51e-18 -0.005710 1.88e-17 -0.007020 0.990587 (0.006869) 0.997606 (0.000672) 0.992672 0.997532 --->beagle2-----germline1: 3.96e-18 0.382162 5.6e-152 0.381313 0.990587 (0.006869) 0.609274 (0.008842) 0.992672 0.609375 --->beagle2-----germline2: 3.96e-18 0.222885 3.38e-128 0.222288 0.990587 (0.006869) 0.768298 (0.009923) 0.992672 0.768771 --->beagle2-----dash-----: 3.96e-18 0.604505 6.25e-168 0.604988 0.990587 (0.006869) 0.385598 (0.011103) 0.992672 0.385547 --->plink-------germline1: 3.96e-18 0.388619 1.09e-164 0.388332 0.997606 (0.000672) 0.609274 (0.008842) 0.997532 0.609375 --->plink-------germline2: 3.96e-18 0.229636 4.26e-137 0.229308 0.997606 (0.000672) 0.768298 (0.009923) 0.997532 0.768771 --->plink-------dash-----: 3.96e-18 0.611664 4.26e-174 0.612008 0.997606 (0.000672) 0.385598 (0.011103) 0.997532 0.385547 --->germline1---germline2: 3.96e-18 -0.158913 2.94e-146 -0.159025 0.609274 (0.008842) 0.768298 (0.009923) 0.609375 0.768771 --->germline1---dash-----: 3.96e-18 0.222946 5.36e-107 0.223676 0.609274 (0.008842) 0.385598 (0.011103) 0.609375 0.385547 --->germline2---dash-----: 3.96e-18 0.381861 2.67e-129 0.382700 0.768298 (0.009923) 0.385598 (0.011103) 0.768771 0.385547 ######FPR###### --->fabia-------beagle1--: 3.96e-18 -0.032532 1.81e-46 -0.032861 6.36e-05 (0.000166) 0.032924 (0.012496) 0.000000 0.032347 --->fabia-------beagle2--: 3.96e-18 -0.006675 2.17e-20 -0.008043 6.36e-05 (0.000166) 0.008106 (0.006855) 0.000000 0.006183 --->fabia-------plink----: 3.96e-18 -0.002283 5.4e-57 -0.002280 6.36e-05 (0.000166) 0.002343 (0.000677) 0.000000 0.002368 --->fabia-------germline1: 3.96e-18 -0.391219 4.82e-165 -0.390930 6.36e-05 (0.000166) 0.390994 (0.008867) 0.000000 0.390952 --->fabia-------germline2: 3.96e-18 -0.231663 1.38e-137 -0.231301 6.36e-05 (0.000166) 0.231365 (0.009931) 0.000000 0.231122 --->fabia-------dash-----: 3.96e-18 -0.997033 1.46e-307 -0.997102 6.36e-05 (0.000166) 0.997166 (0.000809) 0.000000 0.996933 --->beagle1-----beagle2--: 5.66e-17 0.026276 6.36e-34 0.024818 0.032924 (0.012496) 0.008106 (0.006855) 0.032347 0.006183 --->beagle1-----plink----: 3.96e-18 0.030277 5.65e-44 0.030581 0.032924 (0.012496) 0.002343 (0.000677) 0.032347 0.002368 --->beagle1-----germline1: 3.96e-18 -0.357952 3.03e-140 -0.358070 0.032924 (0.012496) 0.390994 (0.008867) 0.032347 0.390952 --->beagle1-----germline2: 3.96e-18 -0.198342 1.72e-112 -0.198440 0.032924 (0.012496) 0.231365 (0.009931) 0.032347 0.231122 --->beagle1-----dash-----: 3.96e-18 -0.964639 1.56e-188 -0.964241 0.032924 (0.012496) 0.997166 (0.000809) 0.032347 0.996933 --->beagle2-----plink----: 1.41e-16 0.004468 1.75e-13 0.005763 0.008106 (0.006855) 0.002343 (0.000677) 0.006183 0.002368 --->beagle2-----germline1: 3.96e-18 -0.383723 3.56e-152 -0.382888 0.008106 (0.006855) 0.390994 (0.008867) 0.006183 0.390952 --->beagle2-----germline2: 3.96e-18 -0.223841 1.89e-128 -0.223258 0.008106 (0.006855) 0.231365 (0.009931) 0.006183 0.231122 --->beagle2-----dash-----: 3.96e-18 -0.990452 4.09e-215 -0.989059 0.008106 (0.006855) 0.997166 (0.000809) 0.006183 0.996933 --->plink-------germline1: 3.96e-18 -0.388985 1.19e-164 -0.388651 0.002343 (0.000677) 0.390994 (0.008867) 0.002368 0.390952 --->plink-------germline2: 3.96e-18 -0.229384 4.81e-137 -0.229021 0.002343 (0.000677) 0.231365 (0.009931) 0.002368 0.231122 --->plink-------dash-----: 3.96e-18 -0.994781 1.36e-293 -0.994822 0.002343 (0.000677) 0.997166 (0.000809) 0.002368 0.996933 --->germline1---germline2: 3.96e-18 0.159520 1.24e-146 0.159629 0.390994 (0.008867) 0.231365 (0.009931) 0.390952 0.231122 --->germline1---dash-----: 3.96e-18 -0.605920 1.89e-183 -0.606172 0.390994 (0.008867) 0.997166 (0.000809) 0.390952 0.996933 --->germline2---dash-----: 3.96e-18 -0.765426 1.35e-188 -0.765801 0.231365 (0.009931) 0.997166 (0.000809) 0.231122 0.996933 ######FDR###### --->fabia-------beagle1--: 5.52e-18 -0.975985 9.44e-77 -0.919365 0.071073 (0.165127) 0.990438 (0.010551) 0.000000 0.991870 --->fabia-------beagle2--: 4.34e-18 -0.946510 1.46e-73 -0.897081 0.071073 (0.165127) 0.968154 (0.069750) 0.000000 1.000000 --->fabia-------plink----: 6.03e-18 -0.576855 1.54e-53 -0.543661 0.071073 (0.165127) 0.614734 (0.074005) 0.000000 0.625500 --->fabia-------germline1: 4.08e-18 -0.986262 7.95e-77 -0.925990 0.071073 (0.165127) 0.997063 (0.000654) 0.000000 0.996906 --->fabia-------germline2: 4.08e-18 -0.985758 8e-77 -0.925573 0.071073 (0.165127) 0.996646 (0.001232) 0.000000 0.996618 --->fabia-------dash-----: 5.85e-18 -0.601999 2.13e-54 -0.543329 0.071073 (0.165127) 0.614402 (0.011103) 0.000000 0.614453 --->beagle1-----beagle2--: 1.01e-02 0.015155 9.44e-04 0.022284 0.990438 (0.010551) 0.968154 (0.069750) 0.991870 1.000000 --->beagle1-----plink----: 3.96e-18 0.370878 1.33e-72 0.375703 0.990438 (0.010551) 0.614734 (0.074005) 0.991870 0.625500 --->beagle1-----germline1: 8.42e-07 -0.005717 1.07e-08 -0.006625 0.990438 (0.010551) 0.997063 (0.000654) 0.991870 0.996906 --->beagle1-----germline2: 2.49e-06 -0.005203 7.84e-08 -0.006208 0.990438 (0.010551) 0.996646 (0.001232) 0.991870 0.996618 --->beagle1-----dash-----: 3.96e-18 0.376518 2.12e-138 0.376036 0.990438 (0.010551) 0.614402 (0.011103) 0.991870 0.614453 --->beagle2-----plink----: 4.08e-18 0.355018 2.31e-60 0.353420 0.968154 (0.069750) 0.614734 (0.074005) 1.000000 0.625500 --->beagle2-----germline1: 4.8e-01 -0.007943 7.17e-05 -0.028909 0.968154 (0.069750) 0.997063 (0.000654) 1.000000 0.996906 --->beagle2-----germline2: 5.24e-01 -0.007936 8.83e-05 -0.028492 0.968154 (0.069750) 0.996646 (0.001232) 1.000000 0.996618 --->beagle2-----dash-----: 4.08e-18 0.372119 2.3e-72 0.353752 0.968154 (0.069750) 0.614402 (0.011103) 1.000000 0.614453 --->plink-------germline1: 3.96e-18 -0.377465 2.07e-73 -0.382328 0.614734 (0.074005) 0.997063 (0.000654) 0.625500 0.996906 --->plink-------germline2: 3.96e-18 -0.377117 1.94e-73 -0.381912 0.614734 (0.074005) 0.996646 (0.001232) 0.625500 0.996618 --->plink-------dash-----: 5.42e-01 0.004862 9.65e-01 0.000333 0.614734 (0.074005) 0.614402 (0.011103) 0.625500 0.614453 --->germline1---germline2: 2.79e-05 0.000441 1.79e-05 0.000417 0.997063 (0.000654) 0.996646 (0.001232) 0.996906 0.996618 --->germline1---dash-----: 3.96e-18 0.383033 3.38e-154 0.382661 0.997063 (0.000654) 0.614402 (0.011103) 0.996906 0.614453 --->germline2---dash-----: 3.96e-18 0.382532 7.85e-154 0.382245 0.996646 (0.001232) 0.614402 (0.011103) 0.996618 0.614453 ######specifity###### --->fabia-------beagle1--: 3.96e-18 0.032510 1.81e-46 0.032861 0.999936 (0.000166) 0.967076 (0.012496) 1.000000 0.967653 --->fabia-------beagle2--: 3.96e-18 0.006678 2.17e-20 0.008043 0.999936 (0.000166) 0.991894 (0.006855) 1.000000 0.993817 --->fabia-------plink----: 3.96e-18 0.002267 5.4e-57 0.002280 0.999936 (0.000166) 0.997657 (0.000677) 1.000000 0.997632 --->fabia-------germline1: 3.96e-18 0.391227 4.82e-165 0.390930 0.999936 (0.000166) 0.609006 (0.008867) 1.000000 0.609048 --->fabia-------germline2: 3.96e-18 0.231677 1.38e-137 0.231301 0.999936 (0.000166) 0.768635 (0.009931) 1.000000 0.768878 --->fabia-------dash-----: 3.96e-18 0.222783 1.87e-22 0.248904 0.999936 (0.000166) 0.751033 (0.196352) 1.000000 0.813107 --->beagle1-----beagle2--: 5.66e-17 -0.026239 6.36e-34 -0.024818 0.967076 (0.012496) 0.991894 (0.006855) 0.967653 0.993817 --->beagle1-----plink----: 3.96e-18 -0.030279 5.65e-44 -0.030581 0.967076 (0.012496) 0.997657 (0.000677) 0.967653 0.997632 --->beagle1-----germline1: 3.96e-18 0.357947 3.03e-140 0.358070 0.967076 (0.012496) 0.609006 (0.008867) 0.967653 0.609048 --->beagle1-----germline2: 3.96e-18 0.198344 1.72e-112 0.198440 0.967076 (0.012496) 0.768635 (0.009931) 0.967653 0.768878 --->beagle1-----dash-----: 1.24e-17 0.189169 1.17e-18 0.216043 0.967076 (0.012496) 0.751033 (0.196352) 0.967653 0.813107 --->beagle2-----plink----: 1.41e-16 -0.004472 1.76e-13 -0.005763 0.991894 (0.006855) 0.997657 (0.000677) 0.993817 0.997632 --->beagle2-----germline1: 3.96e-18 0.383749 3.56e-152 0.382888 0.991894 (0.006855) 0.609006 (0.008867) 0.993817 0.609048 --->beagle2-----germline2: 3.96e-18 0.223855 1.89e-128 0.223258 0.991894 (0.006855) 0.768635 (0.009931) 0.993817 0.768878 --->beagle2-----dash-----: 5.68e-18 0.213603 1.76e-21 0.240861 0.991894 (0.006855) 0.751033 (0.196352) 0.993817 0.813107 --->plink-------germline1: 3.96e-18 0.388975 1.19e-164 0.388651 0.997657 (0.000677) 0.609006 (0.008867) 0.997632 0.609048 --->plink-------germline2: 3.96e-18 0.229367 4.81e-137 0.229021 0.997657 (0.000677) 0.768635 (0.009931) 0.997632 0.768878 --->plink-------dash-----: 4.08e-18 0.220425 3.4e-22 0.246624 0.997657 (0.000677) 0.751033 (0.196352) 0.997632 0.813107 --->germline1---germline2: 3.96e-18 -0.159521 1.24e-146 -0.159629 0.609006 (0.008867) 0.768635 (0.009931) 0.609048 0.768878 --->germline1---dash-----: 1.2e-09 -0.169197 1.26e-10 -0.142027 0.609006 (0.008867) 0.751033 (0.196352) 0.609048 0.813107 --->germline2---dash-----: 6.24e-01 -0.009260 3.75e-01 0.017603 0.768635 (0.009931) 0.751033 (0.196352) 0.768878 0.813107 ######sensitivity###### --->fabia-------beagle1--: 5.8e-12 0.454469 3.83e-16 0.369133 0.595144 (0.320799) 0.226011 (0.253357) 0.721264 0.178988 --->fabia-------beagle2--: 2.52e-15 0.619500 2.83e-27 0.503886 0.595144 (0.320799) 0.091258 (0.146192) 0.721264 0.000000 --->fabia-------plink----: 4.89e-18 -0.309799 1.22e-20 -0.366988 0.595144 (0.320799) 0.962132 (0.064029) 0.721264 0.986418 --->fabia-------germline1: 8.41e-06 -0.160091 3.3e-07 -0.195573 0.595144 (0.320799) 0.790717 (0.156111) 0.721264 0.835552 --->fabia-------germline2: 4.16e-02 0.091910 9e-02 0.061686 0.595144 (0.320799) 0.533458 (0.184849) 0.721264 0.550087 --->fabia-------dash-----: 3.96e-18 -613149 1.35e-174 -613511 0.595 ( 0.321) 613512 ( 11089) 0.721 613620 --->beagle1-----beagle2--: 3.61e-10 0.255344 1.98e-12 0.134753 0.226011 (0.253357) 0.091258 (0.146192) 0.178988 0.000000 --->beagle1-----plink----: 4.46e-18 -0.770328 6.3e-49 -0.736121 0.226011 (0.253357) 0.962132 (0.064029) 0.178988 0.986418 --->beagle1-----germline1: 1.27e-17 -0.582265 2.23e-34 -0.564707 0.226011 (0.253357) 0.790717 (0.156111) 0.178988 0.835552 --->beagle1-----germline2: 1.58e-12 -0.318574 3.59e-16 -0.307447 0.226011 (0.253357) 0.533458 (0.184849) 0.178988 0.550087 --->beagle1-----dash-----: 3.96e-18 -613149 1.35e-174 -613511 0.226 ( 0.253) 613512 ( 11089) 0.179 613620 --->beagle2-----plink----: 3.95e-18 -0.883015 3.21e-75 -0.870874 0.091258 (0.146192) 0.962132 (0.064029) 0.000000 0.986418 --->beagle2-----germline1: 4.08e-18 -0.715607 4.08e-55 -0.699460 0.091258 (0.146192) 0.790717 (0.156111) 0.000000 0.835552 --->beagle2-----germline2: 1.48e-17 -0.450313 1.06e-34 -0.442200 0.091258 (0.146192) 0.533458 (0.184849) 0.000000 0.550087 --->beagle2-----dash-----: 3.96e-18 -613149 1.35e-174 -613512 0.0913 ( 0.146) 613512 ( 11089) 0 613620 --->plink-------germline1: 7.35e-16 0.158084 1.03e-18 0.171414 0.962132 (0.064029) 0.790717 (0.156111) 0.986418 0.835552 --->plink-------germline2: 3.96e-18 0.424010 3.02e-43 0.428674 0.962132 (0.064029) 0.533458 (0.184849) 0.986418 0.550087 --->plink-------dash-----: 3.96e-18 -613148 1.35e-174 -613511 0.962 ( 0.064) 613512 ( 11089) 0.986 613620 --->germline1---germline2: 5.78e-18 0.252735 3.54e-32 0.257260 0.790717 (0.156111) 0.533458 (0.184849) 0.835552 0.550087 --->germline1---dash-----: 3.96e-18 -613148 1.35e-174 -613511 0.791 ( 0.156) 613512 ( 11089) 0.836 613620 --->germline2---dash-----: 3.96e-18 -613149 1.35e-174 -613511 0.533 ( 0.185) 613512 ( 11089) 0.55 613620 ######trueN###### --->fabia-------beagle1--: 3.96e-18 1032359 6.99e-192 1032717 2e+06 ( 346) 965675 ( 12489) 2e+06 966292 --->fabia-------beagle2--: 3.96e-18 1006575 1.78e-216 1007935 2e+06 ( 346) 990457 ( 6843) 2e+06 992490 --->fabia-------plink----: 3.96e-18 1e+06 2.93e-315 1e+06 2e+06 ( 346) 996211 ( 695) 2e+06 996170 --->fabia-------germline1: 3.96e-18 1390550 7.61e-220 1390268 2e+06 ( 346) 608124 ( 8855) 2e+06 608148 --->fabia-------germline2: 3.96e-18 1231245 1.2e-209 1230870 2e+06 ( 346) 767522 ( 9922) 2e+06 767756 --->fabia-------dash-----: 3.96e-18 1612975 8.61e-216 1613353 2e+06 ( 346) 385039 ( 11085) 2e+06 385024 --->beagle1-----beagle2--: 5.66e-17 -26223 6.35e-34 -24782 965675 ( 12489) 990457 ( 6843) 966292 992490 --->beagle1-----plink----: 3.96e-18 -30226 5.63e-44 -30537 965675 ( 12489) 996211 ( 695) 966292 996170 --->beagle1-----germline1: 3.96e-18 357421 3.09e-140 357551 965675 ( 12489) 608124 ( 8855) 966292 608148 --->beagle1-----germline2: 3.96e-18 198077 1.73e-112 198153 965675 ( 12489) 767522 ( 9922) 966292 767756 --->beagle1-----dash-----: 3.96e-18 580472 3.02e-151 580635 965675 ( 12489) 385039 ( 11085) 966292 385024 --->beagle2-----plink----: 1.41e-16 -4459 1.76e-13 -5754 990457 ( 6843) 996211 ( 695) 992490 996170 --->beagle2-----germline1: 3.96e-18 383185 3.54e-152 382333 990457 ( 6843) 608124 ( 8855) 992490 608148 --->beagle2-----germline2: 3.96e-18 223550 1.87e-128 222935 990457 ( 6843) 767522 ( 9922) 992490 767756 --->beagle2-----dash-----: 3.96e-18 604970 4.53e-168 605417 990457 ( 6843) 385039 ( 11085) 992490 385024 --->plink-------germline1: 3.96e-18 388390 1.19e-164 388087 996211 ( 695) 608124 ( 8855) 996170 608148 --->plink-------germline2: 3.96e-18 229067 4.75e-137 228689 996211 ( 695) 767522 ( 9922) 996170 767756 --->plink-------dash-----: 3.96e-18 610795 4.67e-174 611172 996211 ( 695) 385039 ( 11085) 996170 385024 --->germline1---germline2: 3.96e-18 -159285 1.29e-146 -159398 608124 ( 8855) 767522 ( 9922) 608148 767756 --->germline1---dash-----: 3.96e-18 222332 7.05e-107 223084 608124 ( 8855) 385039 ( 11085) 608148 385024 --->germline2---dash-----: 3.96e-18 381585 2.7e-129 382482 767522 ( 9922) 385039 ( 11085) 767756 385024 ######falseP###### --->fabia-------beagle1--: 3.96e-18 -32390 2.11e-46 -32750 127 ( 331) 32877 ( 12478) 0 32302 --->fabia-------beagle2--: 3.96e-18 -6610 4e-20 -7967 127 ( 331) 8094 ( 6846) 0 6174 --->fabia-------plink----: 3.96e-18 -2210 1.89e-54 -2213 127 ( 331) 2340 ( 676) 0 2364 --->fabia-------germline1: 3.96e-18 -390600 3.13e-165 -390300 127 ( 331) 390427 ( 8854) 0 390374 --->fabia-------germline2: 3.96e-18 -231283 9.95e-138 -230902 127 ( 331) 231029 ( 9916) 0 230779 --->fabia-------dash-----: 4.33e-09 -249 3.3e-07 -227 127 ( 331) 354 ( 271) 0 274 --->beagle1-----beagle2--: 5.66e-17 26223 6.35e-34 24782 32877 ( 12478) 8094 ( 6846) 32302 6174 --->beagle1-----plink----: 3.96e-18 30226 5.63e-44 30537 32877 ( 12478) 2340 ( 676) 32302 2364 --->beagle1-----germline1: 3.96e-18 -357421 3.09e-140 -357551 32877 ( 12478) 390427 ( 8854) 32302 390374 --->beagle1-----germline2: 3.96e-18 -198079 1.73e-112 -198153 32877 ( 12478) 231029 ( 9916) 32302 230779 --->beagle1-----dash-----: 3.96e-18 32176 4.9e-46 32523 32877 ( 12478) 354 ( 271) 32302 274 --->beagle2-----plink----: 1.41e-16 4458 1.76e-13 5754 8094 ( 6846) 2340 ( 676) 6174 2364 --->beagle2-----germline1: 3.96e-18 -383182 3.54e-152 -382333 8094 ( 6846) 390427 ( 8854) 6174 390374 --->beagle2-----germline2: 3.96e-18 -223550 1.87e-128 -222935 8094 ( 6846) 231029 ( 9916) 6174 230779 --->beagle2-----dash-----: 3.96e-18 6355 2.05e-19 7741 8094 ( 6846) 354 ( 271) 6174 274 --->plink-------germline1: 3.96e-18 -388390 1.19e-164 -388087 2340 ( 676) 390427 ( 8854) 2364 390374 --->plink-------germline2: 3.96e-18 -229067 4.75e-137 -228689 2340 ( 676) 231029 ( 9916) 2364 230779 --->plink-------dash-----: 3.96e-18 1979 4.82e-46 1986 2340 ( 676) 354 ( 271) 2364 274 --->germline1---germline2: 3.96e-18 159285 1.29e-146 159398 390427 ( 8854) 231029 ( 9916) 390374 230779 --->germline1---dash-----: 3.96e-18 390333 1.23e-164 390074 390427 ( 8854) 354 ( 271) 390374 274 --->germline2---dash-----: 3.96e-18 231047 3.03e-137 230675 231029 ( 9916) 354 ( 271) 230779 274 ######falseN###### --->fabia-------beagle1--: 1.71e-11 -609 4.75e-15 -528 594 ( 466) 1122 ( 380) 406 1216 --->fabia-------beagle2--: 2.74e-15 -853 3.65e-25 -725 594 ( 466) 1319 ( 241) 406 1412 --->fabia-------plink----: 4.74e-18 457 7.26e-21 540 594 ( 466) 53.8 ( 90.8) 406 20 --->fabia-------germline1: 3.98e-06 243 1.55e-07 295 594 ( 466) 299 ( 217) 406 232 --->fabia-------germline2: 6.56e-02 -123 1.47e-01 -78 594 ( 466) 672 ( 265) 406 634 --->fabia-------dash-----: 3.19e-11 -530 7.51e-14 -501 594 ( 466) 1095 ( 313) 406 1183 --->beagle1-----beagle2--: 3.61e-10 -376 2.55e-12 -197 1122 ( 380) 1319 ( 241) 1216 1412 --->beagle1-----plink----: 4.46e-18 1106 1.64e-47 1068 1122 ( 380) 53.8 ( 90.8) 1216 20 --->beagle1-----germline1: 1.31e-17 843 2.49e-33 823 1122 ( 380) 299 ( 217) 1216 232 --->beagle1-----germline2: 1.64e-12 465 5.45e-16 450 1122 ( 380) 672 ( 265) 1216 634 --->beagle1-----dash-----: 2.22e-01 47.8 5.52e-01 27.3 1122 ( 380) 1095 ( 313) 1216 1183 --->beagle2-----plink----: 3.95e-18 1288 3.3e-70 1265 1319 ( 241) 53.8 ( 90.8) 1412 20 --->beagle2-----germline1: 4.08e-18 1038 3.87e-52 1020 1319 ( 241) 299 ( 217) 1412 232 --->beagle2-----germline2: 1.52e-17 656 1.2e-33 647 1319 ( 241) 672 ( 265) 1412 634 --->beagle2-----dash-----: 6.46e-10 215 3.47e-09 224 1319 ( 241) 1095 ( 313) 1412 1183 --->plink-------germline1: 6.75e-16 -230 4.47e-19 -245 53.8 ( 90.8) 299 ( 217) 20 232 --->plink-------germline2: 3.96e-18 -610 3.91e-43 -619 53.8 ( 90.8) 672 ( 265) 20 634 --->plink-------dash-----: 4.2e-18 -1076 4.31e-52 -1041 53.8 ( 90.8) 1095 ( 313) 20 1183 --->germline1---germline2: 5.78e-18 -366 1.43e-31 -374 299 ( 217) 672 ( 265) 232 634 --->germline1---dash-----: 2.65e-16 -855 2.39e-28 -796 299 ( 217) 1095 ( 313) 232 1183 --->germline2---dash-----: 7.66e-11 -458 4.18e-13 -423 672 ( 265) 1095 ( 313) 634 1183 ######trueP###### --->fabia-------beagle1--: 3.48e-12 682 1.42e-16 560 887 ( 484) 327 ( 370) 1075 264 --->fabia-------beagle2--: 2.28e-15 924 2.77e-27 757 887 ( 484) 130 ( 211) 1075 0 --->fabia-------plink----: 6.21e-18 -418 1.26e-19 -508 887 ( 484) 1395 ( 142) 1075 1421 --->fabia-------germline1: 4.79e-05 -209 1.71e-06 -263 887 ( 484) 1150 ( 256) 1075 1220 --->fabia-------germline2: 2.31e-02 152 3.91e-02 110 887 ( 484) 777 ( 285) 1075 791 --->fabia-------dash-----: 1.94e-15 1105 1.48e-33 887 887 ( 484) 0.000606 ( 0.00217) 1075 0 --->beagle1-----beagle2--: 3.61e-10 376 2.55e-12 197 327 ( 370) 130 ( 211) 264 0 --->beagle1-----plink----: 4.46e-18 -1106 1.64e-47 -1068 327 ( 370) 1395 ( 142) 264 1421 --->beagle1-----germline1: 1.31e-17 -843 2.49e-33 -823 327 ( 370) 1150 ( 256) 264 1220 --->beagle1-----germline2: 1.64e-12 -465 5.45e-16 -450 327 ( 370) 777 ( 285) 264 791 --->beagle1-----dash-----: 6.93e-13 430 4.03e-14 327 327 ( 370) 0.000606 ( 0.00217) 264 0 --->beagle2-----plink----: 3.95e-18 -1288 3.3e-70 -1265 130 ( 211) 1395 ( 142) 0 1421 --->beagle2-----germline1: 4.08e-18 -1038 3.87e-52 -1020 130 ( 211) 1150 ( 256) 0 1220 --->beagle2-----germline2: 1.52e-17 -656 1.2e-33 -647 130 ( 211) 777 ( 285) 0 791 --->beagle2-----dash-----: 1e+00 0.000000 1.64e-08 129.869394 129.870000 (211.162901) 0.000606 (0.002172) 0.000000 0.000000 --->plink-------germline1: 6.75e-16 230 4.47e-19 245 1395 ( 142) 1150 ( 256) 1421 1220 --->plink-------germline2: 3.96e-18 610 3.91e-43 619 1395 ( 142) 777 ( 285) 1421 791 --->plink-------dash-----: 3.95e-18 1409 1.45e-100 1395 1395 ( 142) 0.000606 ( 0.00217) 1421 0 --->germline1---germline2: 5.78e-18 366 1.43e-31 374 1150 ( 256) 777 ( 285) 1220 791 --->germline1---dash-----: 3.96e-18 1175 1.28e-67 1150 1150 ( 256) 0.000606 ( 0.00217) 1220 0 --->germline2---dash-----: 3.96e-18 782 8.48e-48 777 777 ( 285) 0.000606 ( 0.00217) 791 0 ######MatthewsSnps###### --->fabia-------beagle1--: 1.18e-16 0.641744 1.57e-33 0.566752 0.608885 (0.308560) 0.042133 (0.102465) 0.752785 0.066079 --->fabia-------beagle2--: 9.2e-16 0.565961 9.78e-27 0.528889 0.608885 (0.308560) 0.079996 (0.195134) 0.752785 0.039332 --->fabia-------plink----: 1.29e-04 0.242028 5.66e-07 0.166015 0.608885 (0.308560) 0.442870 (0.071996) 0.752785 0.433653 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.608885 (0.308560) 0.000000 (0.000000) 0.752785 0.000000 --->fabia-------germline2: 1.47e-15 0.749460 5.03e-36 0.608020 0.608885 (0.308560) 0.000865 (0.002506) 0.752785 0.000000 --->fabia-------dash-----: 5.7e-16 0.659020 7.91e-34 0.569660 0.608885 (0.308560) 0.039225 (3.61e-05) 0.752785 0.039216 --->beagle1-----beagle2--: 2.22e-01 -0.029479 4.27e-02 -0.037863 0.042133 (0.102465) 0.079996 (0.195134) 0.066079 0.039332 --->beagle1-----plink----: 3.96e-18 -0.389600 1.29e-54 -0.400737 0.042133 (0.102465) 0.442870 (0.071996) 0.066079 0.433653 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.042133 (0.102465) 0.000000 (0.000000) 0.066079 0.000000 --->beagle1-----germline2: 5.8e-06 0.061500 1.19e-04 0.041268 0.042133 (0.102465) 0.000865 (0.002506) 0.066079 0.000000 --->beagle1-----dash-----: 1.63e-03 0.023024 7.77e-01 0.002908 0.042133 (0.102465) 0.039225 (3.61e-05) 0.066079 0.039216 --->beagle2-----plink----: 2.24e-17 -0.370460 3.29e-33 -0.362874 0.079996 (0.195134) 0.442870 (0.071996) 0.039332 0.433653 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.079996 (0.195134) 0.000000 (0.000000) 0.039332 0.000000 --->beagle2-----germline2: 2.68e-04 0.064730 1.01e-04 0.079131 0.079996 (0.195134) 0.000865 (0.002506) 0.039332 0.000000 --->beagle2-----dash-----: 9.92e-02 0.026947 3.92e-02 0.040770 0.079996 (0.195134) 0.039225 (3.61e-05) 0.039332 0.039216 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.442870 (0.071996) 0.000000 (0.000000) 0.433653 0.000000 --->plink-------germline2: 3.96e-18 0.437899 1.11e-80 0.442005 0.442870 (0.071996) 0.000865 (0.002506) 0.433653 0.000000 --->plink-------dash-----: 3.96e-18 0.399510 8.05e-77 0.403644 0.442870 (0.071996) 0.039225 (3.61e-05) 0.433653 0.039216 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000865 (0.002506) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.039225 (3.61e-05) 0.000000 0.039216 --->germline2---dash-----: 5.85e-21 -0.039199 1.6e-119 -0.038360 0.000865 (0.002506) 0.039225 (3.61e-05) 0.000000 0.039216 ######F1Snps###### --->fabia-------beagle1--: 6.14e-16 0.632462 6.39e-33 0.543889 0.591694 (0.305813) 0.047805 (0.022577) 0.730146 0.047408 --->fabia-------beagle2--: 2.58e-15 0.620962 3.93e-28 0.507493 0.591694 (0.305813) 0.084201 (0.127879) 0.730146 0.044639 --->fabia-------plink----: 8.2e-09 0.301826 1.15e-11 0.237919 0.591694 (0.305813) 0.353775 (0.085146) 0.730146 0.339277 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.591694 (0.305813) 0.039216 (0.000000) 0.730146 0.039216 --->fabia-------germline2: 5.67e-16 0.631375 4.17e-33 0.552465 0.591694 (0.305813) 0.039229 (4.22e-05) 0.730146 0.039216 --->fabia-------dash-----: 5.67e-16 0.650643 3.15e-34 0.571448 0.591694 (0.305813) 0.020246 (0.000935) 0.730146 0.020000 --->beagle1-----beagle2--: 9.4e-02 -0.015932 4.43e-03 -0.036397 0.047805 (0.022577) 0.084201 (0.127879) 0.047408 0.044639 --->beagle1-----plink----: 3.96e-18 -0.301415 1.36e-57 -0.305971 0.047805 (0.022577) 0.353775 (0.085146) 0.047408 0.339277 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.047805 (0.022577) 0.039216 (0.000000) 0.047408 0.039216 --->beagle1-----germline2: 1.3e-06 0.008666 2.52e-04 0.008576 0.047805 (0.022577) 0.039229 (4.22e-05) 0.047408 0.039216 --->beagle1-----dash-----: 4.28e-16 0.027626 2e-21 0.027559 0.047805 (0.022577) 0.020246 (0.000935) 0.047408 0.020000 --->beagle2-----plink----: 1.09e-16 -0.280296 7.64e-35 -0.269574 0.084201 (0.127879) 0.353775 (0.085146) 0.044639 0.339277 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.084201 (0.127879) 0.039216 (0.000000) 0.044639 0.039216 --->beagle2-----germline2: 1.14e-02 0.024378 6.61e-04 0.044972 0.084201 (0.127879) 0.039229 (4.22e-05) 0.044639 0.039216 --->beagle2-----dash-----: 1.3e-05 0.043621 2.51e-06 0.063955 0.084201 (0.127879) 0.020246 (0.000935) 0.044639 0.020000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.353775 (0.085146) 0.039216 (0.000000) 0.339277 0.039216 --->plink-------germline2: 3.96e-18 0.308316 1.03e-59 0.314547 0.353775 (0.085146) 0.039229 (4.22e-05) 0.339277 0.039216 --->plink-------dash-----: 3.96e-18 0.327492 4.33e-62 0.333529 0.353775 (0.085146) 0.020246 (0.000935) 0.339277 0.020000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.039216 (0.000000) 0.039229 (4.22e-05) 0.039216 0.039216 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.039216 (0.000000) 0.020246 (0.000935) 0.039216 0.020000 --->germline2---dash-----: 5.85e-21 0.019173 1.02e-131 0.018983 0.039229 (4.22e-05) 0.020246 (0.000935) 0.039216 0.020000 ######accuracySnps###### --->fabia-------beagle1--: 3.96e-18 0.731209 7.28e-68 0.721650 0.987827 (0.008292) 0.266177 (0.160043) 0.991400 0.236000 --->fabia-------beagle2--: 3.96e-18 0.287416 5.36e-31 0.307290 0.987827 (0.008292) 0.680537 (0.181046) 0.991400 0.726150 --->fabia-------plink----: 3.95e-18 0.065827 4.25e-44 0.066728 0.987827 (0.008292) 0.921099 (0.027619) 0.991400 0.922950 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.987827 (0.008292) 0.020000 (0.000000) 0.991400 0.020000 --->fabia-------germline2: 3.8e-18 0.968467 1.86e-205 0.967487 0.987827 (0.008292) 0.020340 (0.001092) 0.991400 0.020000 --->fabia-------dash-----: 3.92e-18 -0.010748 1.04e-25 -0.011922 0.987827 (0.008292) 0.999749 (0.000954) 0.991400 1.000000 --->beagle1-----beagle2--: 8.28e-17 -0.453071 9.23e-34 -0.414360 0.266177 (0.160043) 0.680537 (0.181046) 0.236000 0.726150 --->beagle1-----plink----: 3.96e-18 -0.664997 4.53e-63 -0.654922 0.266177 (0.160043) 0.921099 (0.027619) 0.236000 0.922950 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.266177 (0.160043) 0.020000 (0.000000) 0.236000 0.020000 --->beagle1-----germline2: 3.96e-18 0.235300 6.15e-28 0.245837 0.266177 (0.160043) 0.020340 (0.001092) 0.236000 0.020000 --->beagle1-----dash-----: 3.96e-18 -0.743937 1.79e-68 -0.733572 0.266177 (0.160043) 0.999749 (0.000954) 0.236000 1.000000 --->beagle2-----plink----: 1.03e-17 -0.222324 7.49e-24 -0.240562 0.680537 (0.181046) 0.921099 (0.027619) 0.726150 0.922950 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.680537 (0.181046) 0.020000 (0.000000) 0.726150 0.020000 --->beagle2-----germline2: 3.96e-18 0.679751 3.62e-59 0.660197 0.680537 (0.181046) 0.020340 (0.001092) 0.726150 0.020000 --->beagle2-----dash-----: 3.96e-18 -0.299559 2.58e-32 -0.319212 0.680537 (0.181046) 0.999749 (0.000954) 0.726150 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.921099 (0.027619) 0.020000 (0.000000) 0.922950 0.020000 --->plink-------germline2: 3.95e-18 0.901669 6.72e-152 0.900759 0.921099 (0.027619) 0.020340 (0.001092) 0.922950 0.020000 --->plink-------dash-----: 3.96e-18 -0.077675 1.91e-49 -0.078650 0.921099 (0.027619) 0.999749 (0.000954) 0.922950 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.020000 (0.000000) 0.020340 (0.001092) 0.020000 0.020000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.020000 (0.000000) 0.999749 (0.000954) 0.020000 1.000000 --->germline2---dash-----: 5.85e-21 -0.980000 7.99e-280 -0.979409 0.020340 (0.001092) 0.999749 (0.000954) 0.020000 1.000000 ######FPRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.753672 4.09e-68 -0.743595 0.002669 (0.007356) 0.746264 (0.163994) 0.000000 0.779592 --->fabia-------beagle2--: 3.96e-18 -0.292061 1.07e-30 -0.313457 0.002669 (0.007356) 0.316127 (0.186142) 0.000000 0.265051 --->fabia-------plink----: 3.95e-18 -0.076851 1.44e-49 -0.077713 0.002669 (0.007356) 0.080383 (0.028195) 0.000000 0.078622 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.002669 (0.007356) 1.000000 (0.000000) 0.000000 1.000000 --->fabia-------germline2: 1.17e-19 -0.999821 2e-211 -0.996984 0.002669 (0.007356) 0.999653 (0.001115) 0.000000 1.000000 --->fabia-------dash-----: 9.9e-20 -0.979932 2.88e-212 -0.977326 0.002669 (0.007356) 0.979995 (1.88e-05) 0.000000 0.980000 --->beagle1-----beagle2--: 8.28e-17 0.471719 5.06e-34 0.430138 0.746264 (0.163994) 0.316127 (0.186142) 0.779592 0.265051 --->beagle1-----plink----: 3.96e-18 0.675727 9.13e-63 0.665882 0.746264 (0.163994) 0.080383 (0.028195) 0.779592 0.078622 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.746264 (0.163994) 1.000000 (0.000000) 0.779592 1.000000 --->beagle1-----germline2: 3.96e-18 -0.243414 4.06e-28 -0.253389 0.746264 (0.163994) 0.999653 (0.001115) 0.779592 1.000000 --->beagle1-----dash-----: 5.51e-18 -0.223539 1e-25 -0.233731 0.746264 (0.163994) 0.979995 (1.88e-05) 0.779592 0.980000 --->beagle2-----plink----: 1.35e-17 0.216008 1.51e-22 0.235744 0.316127 (0.186142) 0.080383 (0.028195) 0.265051 0.078622 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.316127 (0.186142) 1.000000 (0.000000) 0.265051 1.000000 --->beagle2-----germline2: 3.96e-18 -0.705140 1.91e-59 -0.683527 0.316127 (0.186142) 0.999653 (0.001115) 0.265051 1.000000 --->beagle2-----dash-----: 3.96e-18 -0.685297 2.63e-58 -0.663869 0.316127 (0.186142) 0.979995 (1.88e-05) 0.265051 0.980000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.080383 (0.028195) 1.000000 (0.000000) 0.078622 1.000000 --->plink-------germline2: 3.96e-18 -0.920194 6.9e-152 -0.919270 0.080383 (0.028195) 0.999653 (0.001115) 0.078622 1.000000 --->plink-------dash-----: 3.95e-18 -0.900617 6.05e-151 -0.899612 0.080383 (0.028195) 0.979995 (1.88e-05) 0.078622 0.980000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.999653 (0.001115) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 0.979995 (1.88e-05) 1.000000 0.980000 --->germline2---dash-----: 5.85e-21 0.019939 1.4e-125 0.019658 0.999653 (0.001115) 0.979995 (1.88e-05) 1.000000 0.980000 ######FDRSnps###### --->fabia-------beagle1--: 4.07e-18 -0.969582 2.39e-68 -0.895618 0.079743 (0.195891) 0.975362 (0.011917) 0.000000 0.975720 --->fabia-------beagle2--: 3.54e-18 -0.932643 3.38e-65 -0.870648 0.079743 (0.195891) 0.950391 (0.086304) 0.000000 0.977124 --->fabia-------plink----: 4.33e-18 -0.748980 7.65e-59 -0.701653 0.079743 (0.195891) 0.781397 (0.065984) 0.000000 0.795570 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.079743 (0.195891) 0.980000 (0.000000) 0.000000 0.980000 --->fabia-------germline2: 1.21e-19 -0.979930 1.38e-68 -0.900250 0.079743 (0.195891) 0.979993 ( 2.2e-05) 0.000000 0.980000 --->fabia-------dash-----: 1e+00 0.000000 9.97e-05 0.079492 0.079743 (0.195891) 0.000251 (0.000954) 0.000000 0.000000 --->beagle1-----beagle2--: 6.92e-02 0.009455 4.11e-03 0.024971 0.975362 (0.011917) 0.950391 (0.086304) 0.975720 0.977124 --->beagle1-----plink----: 3.96e-18 0.187862 2.49e-50 0.193965 0.975362 (0.011917) 0.781397 (0.065984) 0.975720 0.795570 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.975362 (0.011917) 0.980000 (0.000000) 0.975720 0.980000 --->beagle1-----germline2: 1.21e-06 -0.004528 1.85e-04 -0.004632 0.975362 (0.011917) 0.979993 ( 2.2e-05) 0.975720 0.980000 --->beagle1-----dash-----: 3.94e-18 0.975103 2.61e-191 0.975111 0.975362 (0.011917) 0.000251 (0.000954) 0.975720 0.000000 --->beagle2-----plink----: 2.57e-16 0.174379 2.1e-31 0.168994 0.950391 (0.086304) 0.781397 (0.065984) 0.977124 0.795570 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.950391 (0.086304) 0.980000 (0.000000) 0.977124 0.980000 --->beagle2-----germline2: 1.14e-02 -0.013958 8.82e-04 -0.029602 0.950391 (0.086304) 0.979993 ( 2.2e-05) 0.977124 0.980000 --->beagle2-----dash-----: 1.85e-18 0.966035 2.19e-105 0.950140 0.950391 (0.086304) 0.000251 (0.000954) 0.977124 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.781397 (0.065984) 0.980000 (0.000000) 0.795570 0.980000 --->plink-------germline2: 3.96e-18 -0.192025 1.27e-51 -0.198597 0.781397 (0.065984) 0.979993 ( 2.2e-05) 0.795570 0.980000 --->plink-------dash-----: 3.96e-18 0.787936 2.05e-108 0.781146 0.781397 (0.065984) 0.000251 (0.000954) 0.795570 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.980000 (0.000000) 0.979993 ( 2.2e-05) 0.980000 0.980000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.980000 (0.000000) 0.000251 (0.000954) 0.980000 0.000000 --->germline2---dash-----: 5.85e-21 0.980000 4.69e-300 0.979742 0.979993 ( 2.2e-05) 0.000251 (0.000954) 0.980000 0.000000 ######specifitySnps###### --->fabia-------beagle1--: 3.96e-18 0.753668 4.09e-68 0.743595 0.997331 (0.007356) 0.253736 (0.163994) 1.000000 0.220408 --->fabia-------beagle2--: 3.96e-18 0.292064 1.07e-30 0.313457 0.997331 (0.007356) 0.683873 (0.186142) 1.000000 0.734949 --->fabia-------plink----: 3.95e-18 0.076866 1.44e-49 0.077713 0.997331 (0.007356) 0.919617 (0.028195) 1.000000 0.921378 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.997331 (0.007356) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------germline2: 1.17e-19 0.999821 2e-211 0.996984 0.997331 (0.007356) 0.000347 (0.001115) 1.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.997331 (0.007356) 1.000000 (0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 8.28e-17 -0.471662 5.06e-34 -0.430138 0.253736 (0.163994) 0.683873 (0.186142) 0.220408 0.734949 --->beagle1-----plink----: 3.96e-18 -0.675779 9.13e-63 -0.665882 0.253736 (0.163994) 0.919617 (0.028195) 0.220408 0.921378 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.253736 (0.163994) 0.000000 (0.000000) 0.220408 0.000000 --->beagle1-----germline2: 3.96e-18 0.243369 4.06e-28 0.253389 0.253736 (0.163994) 0.000347 (0.001115) 0.220408 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.253736 (0.163994) 1.000000 (0.000000) 0.220408 1.000000 --->beagle2-----plink----: 1.35e-17 -0.216036 1.51e-22 -0.235744 0.683873 (0.186142) 0.919617 (0.028195) 0.734949 0.921378 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.683873 (0.186142) 0.000000 (0.000000) 0.734949 0.000000 --->beagle2-----germline2: 3.96e-18 0.705155 1.91e-59 0.683527 0.683873 (0.186142) 0.000347 (0.001115) 0.734949 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.683873 (0.186142) 1.000000 (0.000000) 0.734949 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.919617 (0.028195) 0.000000 (0.000000) 0.921378 0.000000 --->plink-------germline2: 3.96e-18 0.920177 6.9e-152 0.919270 0.919617 (0.028195) 0.000347 (0.001115) 0.921378 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.919617 (0.028195) 1.000000 (0.000000) 0.921378 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000347 (0.001115) 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 0.000347 (0.001115) 1.000000 (0.000000) 0.000000 1.000000 ######sensitivitySnps###### --->fabia-------beagle1--: 5.27e-12 -0.359947 3.23e-15 -0.353650 0.522150 (0.283372) 0.875800 (0.300310) 0.612500 1.000000 --->fabia-------beagle2--: 4.7e-01 0.052510 9.28e-01 0.005100 0.522150 (0.283372) 0.517050 (0.496151) 0.612500 0.917500 --->fabia-------plink----: 3.85e-18 -0.415030 1.42e-30 -0.471550 0.522150 (0.283372) 0.993700 (0.017719) 0.612500 1.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.522150 (0.283372) 1.000000 (0.000000) 0.612500 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.522150 (0.283372) 1.000000 (0.000000) 0.612500 1.000000 --->fabia-------dash-----: 3.65e-07 0.619973 4.14e-02 -1.937850 0.522150 (0.283372) 2.460000 (9.350007) 0.612500 0.000000 --->beagle1-----beagle2--: 5.32e-09 0.999921 1.21e-11 0.358750 0.875800 (0.300310) 0.517050 (0.496151) 1.000000 0.917500 --->beagle1-----plink----: 1e+00 0.000000 1.55e-04 -0.117900 0.875800 (0.300310) 0.993700 (0.017719) 1.000000 1.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.875800 (0.300310) 1.000000 (0.000000) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.875800 (0.300310) 1.000000 (0.000000) 1.000000 1.000000 --->beagle1-----dash-----: 5.51e-10 0.999936 9.35e-02 -1.584200 0.875800 (0.300310) 2.460000 (9.350007) 1.000000 0.000000 --->beagle2-----plink----: 4.03e-11 -0.992409 7.72e-16 -0.476650 0.517050 (0.496151) 0.993700 (0.017719) 0.917500 1.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.517050 (0.496151) 1.000000 (0.000000) 0.917500 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.517050 (0.496151) 1.000000 (0.000000) 0.917500 1.000000 --->beagle2-----dash-----: 3.19e-04 0.999943 4.13e-02 -1.942950 0.517050 (0.496151) 2.460000 (9.350007) 0.917500 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.993700 (0.017719) 1.000000 (0.000000) 1.000000 1.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.993700 (0.017719) 1.000000 (0.000000) 1.000000 1.000000 --->plink-------dash-----: 1.44e-10 0.999907 1.2e-01 -1.466300 0.993700 (0.017719) 2.460000 (9.350007) 1.000000 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) 2.460000 (9.350007) 1.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 (0.000000) 2.460000 (9.350007) 1.000000 0.000000 ######trueNSnps###### --->fabia-------beagle1--: 3.96e-18 7386 4.09e-68 7287 9774 ( 72.1) 2487 ( 1607) 9800 2160 --->fabia-------beagle2--: 3.96e-18 2862 1.07e-30 3072 9774 ( 72.1) 6702 ( 1824) 9800 7202 --->fabia-------plink----: 3.95e-18 753 1.44e-49 762 9774 ( 72.1) 9012 ( 276) 9800 9030 --->fabia-------germline1: 1e+00 0 1e+00 0 9774 ( 72.1) 0 ( 0) 9800 0 --->fabia-------germline2: 1.17e-19 9799 2e-211 9770 9774 ( 72.1) 3.4 ( 10.9) 9800 0 --->fabia-------dash-----: 1e+00 0 1.71e-03 -23.7 9774 ( 72.1) 9798 ( 9.35) 9800 9800 --->beagle1-----beagle2--: 8.28e-17 -4623 5.06e-34 -4215 2487 ( 1607) 6702 ( 1824) 2160 7202 --->beagle1-----plink----: 3.96e-18 -6623 9.13e-63 -6526 2487 ( 1607) 9012 ( 276) 2160 9030 --->beagle1-----germline1: 1e+00 0 1e+00 0 2487 ( 1607) 0 ( 0) 2160 0 --->beagle1-----germline2: 3.96e-18 2386 4.06e-28 2483 2487 ( 1607) 3.4 ( 10.9) 2160 0 --->beagle1-----dash-----: 3.96e-18 -7413 3.67e-68 -7311 2487 ( 1607) 9798 ( 9.35) 2160 9800 --->beagle2-----plink----: 1.35e-17 -2117 1.51e-22 -2310 6702 ( 1824) 9012 ( 276) 7202 9030 --->beagle2-----germline1: 1e+00 0 1e+00 0 6702 ( 1824) 0 ( 0) 7202 0 --->beagle2-----germline2: 3.96e-18 6910 1.91e-59 6699 6702 ( 1824) 3.4 ( 10.9) 7202 0 --->beagle2-----dash-----: 3.96e-18 -2881 4.5e-31 -3096 6702 ( 1824) 9798 ( 9.35) 7202 9800 --->plink-------germline1: 1e+00 0 1e+00 0 9012 ( 276) 0 ( 0) 9030 0 --->plink-------germline2: 3.95e-18 9018 6.9e-152 9009 9012 ( 276) 3.4 ( 10.9) 9030 0 --->plink-------dash-----: 3.95e-18 -776 2.26e-49 -785 9012 ( 276) 9798 ( 9.35) 9030 9800 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 3.400000 (10.923055) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 9798 ( 9.35) 0 9800 --->germline2---dash-----: 5.82e-21 -9800 3.35e-280 -9794 3.4 ( 10.9) 9798 ( 9.35) 0 9800 ######falsePSnps###### --->fabia-------beagle1--: 3.96e-18 -7386 4.09e-68 -7287 26.2 ( 72.1) 7313 ( 1607) 0 7640 --->fabia-------beagle2--: 3.96e-18 -2862 1.07e-30 -3072 26.2 ( 72.1) 3098 ( 1824) 0 2598 --->fabia-------plink----: 3.95e-18 -753 1.44e-49 -762 26.2 ( 72.1) 788 ( 276) 0 770 --->fabia-------germline1: 1e+00 0 1e+00 0 26.2 ( 72.1) 9800 ( 0) 0 9800 --->fabia-------germline2: 1.17e-19 -9799 2e-211 -9770 26.2 ( 72.1) 9797 ( 10.9) 0 9800 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 26.160000 (72.088851) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 8.28e-17 4623 5.06e-34 4215 7313 ( 1607) 3098 ( 1824) 7640 2598 --->beagle1-----plink----: 3.96e-18 6622 9.13e-63 6526 7313 ( 1607) 788 ( 276) 7640 770 --->beagle1-----germline1: 1e+00 0 1e+00 0 7313 ( 1607) 9800 ( 0) 7640 9800 --->beagle1-----germline2: 3.96e-18 -2386 4.06e-28 -2483 7313 ( 1607) 9797 ( 10.9) 7640 9800 --->beagle1-----dash-----: 1e+00 0 1e+00 0 7313 ( 1607) 0 ( 0) 7640 0 --->beagle2-----plink----: 1.35e-17 2117 1.51e-22 2310 3098 ( 1824) 788 ( 276) 2598 770 --->beagle2-----germline1: 1e+00 0 1e+00 0 3098 ( 1824) 9800 ( 0) 2598 9800 --->beagle2-----germline2: 3.96e-18 -6910 1.91e-59 -6699 3098 ( 1824) 9797 ( 10.9) 2598 9800 --->beagle2-----dash-----: 1e+00 0 1e+00 0 3098 ( 1824) 0 ( 0) 2598 0 --->plink-------germline1: 1e+00 0 1e+00 0 788 ( 276) 9800 ( 0) 770 9800 --->plink-------germline2: 3.95e-18 -9018 6.9e-152 -9009 788 ( 276) 9797 ( 10.9) 770 9800 --->plink-------dash-----: 1e+00 0 1e+00 0 788 ( 276) 0 ( 0) 770 0 --->germline1---germline2: 1e+00 0 1e+00 0 9800 ( 0) 9797 ( 10.9) 9800 9800 --->germline1---dash-----: 1e+00 0 1e+00 0 9800 ( 0) 0 ( 0) 9800 0 --->germline2---dash-----: 1e+00 0 1e+00 0 9797 ( 10.9) 0 ( 0) 9800 0 ######falseNSnps###### --->fabia-------beagle1--: 5.54e-12 72 3.23e-15 70.7 95.6 ( 56.7) 24.8 ( 60.1) 77.5 0 --->fabia-------beagle2--: 4.7e-01 -10.5 9.28e-01 -1.02 95.6 ( 56.7) 96.6 ( 99.2) 77.5 16.5 --->fabia-------plink----: 3.85e-18 83 1.42e-30 94.3 95.6 ( 56.7) 1.26 ( 3.54) 77.5 0 --->fabia-------germline1: 1e+00 0 1e+00 0 95.6 ( 56.7) 0 ( 0) 77.5 0 --->fabia-------germline2: 1e+00 0 1e+00 0 95.6 ( 56.7) 0 ( 0) 77.5 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 95.6 ( 56.7) 200 ( 0) 77.5 200 --->beagle1-----beagle2--: 5.32e-09 -200 1.21e-11 -71.8 24.8 ( 60.1) 96.6 ( 99.2) 0 16.5 --->beagle1-----plink----: 1e+00 0.000000 1.55e-04 23.580000 24.840000 (60.062042) 1.260000 (3.543724) 0.000000 0.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 24.840000 (60.062042) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 24.840000 (60.062042) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 24.8 ( 60.1) 200 ( 0) 0 200 --->beagle2-----plink----: 4.03e-11 198 7.72e-16 95.3 96.6 ( 99.2) 1.26 ( 3.54) 16.5 0 --->beagle2-----germline1: 1e+00 0 1e+00 0 96.6 ( 99.2) 0 ( 0) 16.5 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 96.6 ( 99.2) 0 ( 0) 16.5 0 --->beagle2-----dash-----: 1e+00 0 1e+00 0 96.6 ( 99.2) 200 ( 0) 16.5 200 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 1.260000 (3.543724) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 1.260000 (3.543724) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------dash-----: 1e+00 0 1e+00 0 1.26 ( 3.54) 200 ( 0) 0 200 --->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--: 5.54e-12 -72 3.23e-15 -70.7 104 ( 56.7) 175 ( 60.1) 122 200 --->fabia-------beagle2--: 4.7e-01 10.5 9.28e-01 1.02 104 ( 56.7) 103 ( 99.2) 122 184 --->fabia-------plink----: 3.85e-18 -83 1.42e-30 -94.3 104 ( 56.7) 199 ( 3.54) 122 200 --->fabia-------germline1: 1e+00 0 1e+00 0 104 ( 56.7) 200 ( 0) 122 200 --->fabia-------germline2: 1e+00 0 1e+00 0 104 ( 56.7) 200 ( 0) 122 200 --->fabia-------dash-----: 1e+00 0 1e+00 0 104 ( 56.7) 0 ( 0) 122 0 --->beagle1-----beagle2--: 5.32e-09 200 1.21e-11 71.8 175 ( 60.1) 103 ( 99.2) 200 184 --->beagle1-----plink----: 1e+00 0 1.55e-04 -23.6 175 ( 60.1) 199 ( 3.54) 200 200 --->beagle1-----germline1: 1e+00 0 1e+00 0 175 ( 60.1) 200 ( 0) 200 200 --->beagle1-----germline2: 1e+00 0 1e+00 0 175 ( 60.1) 200 ( 0) 200 200 --->beagle1-----dash-----: 1e+00 0 1e+00 0 175 ( 60.1) 0 ( 0) 200 0 --->beagle2-----plink----: 4.03e-11 -198 7.72e-16 -95.3 103 ( 99.2) 199 ( 3.54) 184 200 --->beagle2-----germline1: 1e+00 0 1e+00 0 103 ( 99.2) 200 ( 0) 184 200 --->beagle2-----germline2: 1e+00 0 1e+00 0 103 ( 99.2) 200 ( 0) 184 200 --->beagle2-----dash-----: 1e+00 0 1e+00 0 103 ( 99.2) 0 ( 0) 184 0 --->plink-------germline1: 1e+00 0 1e+00 0 199 ( 3.54) 200 ( 0) 200 200 --->plink-------germline2: 1e+00 0 1e+00 0 199 ( 3.54) 200 ( 0) 200 200 --->plink-------dash-----: 1e+00 0 1e+00 0 199 ( 3.54) 0 ( 0) 200 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--: 1.95e-16 0.775448 1.29e-30 0.675220 0.809507 (0.385630) 0.134287 (0.180089) 1.000000 0.112691 --->fabia-------beagle2--: 9.41e-17 0.736267 2.24e-29 0.682431 0.809507 (0.385630) 0.127075 (0.231480) 1.000000 -0.010619 --->fabia-------plink----: 1.87e-03 0.329326 3.7e-06 0.188223 0.809507 (0.385630) 0.621284 (0.081726) 1.000000 0.617330 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.809507 (0.385630) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------germline2: 1.68e-18 1.000000 3.1e-38 0.809172 0.809507 (0.385630) 0.000335 (0.003350) 1.000000 0.000000 --->fabia-------dash-----: 5.81e-17 0.818116 5e-30 0.631874 0.809507 (0.385630) 0.177633 (0.009040) 1.000000 0.181818 --->beagle1-----beagle2--: 4.9e-01 0.010486 6.49e-01 0.007212 0.134287 (0.180089) 0.127075 (0.231480) 0.112691 -0.010619 --->beagle1-----plink----: 4.6e-18 -0.501794 3.96e-46 -0.486996 0.134287 (0.180089) 0.621284 (0.081726) 0.112691 0.617330 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.134287 (0.180089) 0.000000 (0.000000) 0.112691 0.000000 --->beagle1-----germline2: 7.74e-10 0.124758 3.93e-11 0.133952 0.134287 (0.180089) 0.000335 (0.003350) 0.112691 0.000000 --->beagle1-----dash-----: 5.73e-03 -0.055814 1.81e-02 -0.043345 0.134287 (0.180089) 0.177633 (0.009040) 0.112691 0.181818 --->beagle2-----plink----: 1.2e-17 -0.515850 2.01e-37 -0.494208 0.127075 (0.231480) 0.621284 (0.081726) -0.010619 0.617330 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.127075 (0.231480) 0.000000 (0.000000) -0.010619 0.000000 --->beagle2-----germline2: 8.34e-04 0.112252 3.25e-07 0.126740 0.127075 (0.231480) 0.000335 (0.003350) -0.010619 0.000000 --->beagle2-----dash-----: 4.51e-02 -0.069630 3.18e-02 -0.050557 0.127075 (0.231480) 0.177633 (0.009040) -0.010619 0.181818 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.621284 (0.081726) 0.000000 (0.000000) 0.617330 0.000000 --->plink-------germline2: 3.86e-18 0.618806 1.57e-89 0.620949 0.621284 (0.081726) 0.000335 (0.003350) 0.617330 0.000000 --->plink-------dash-----: 3.85e-18 0.440192 1.56e-75 0.443651 0.621284 (0.081726) 0.177633 (0.009040) 0.617330 0.181818 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000335 (0.003350) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.177633 (0.009040) 0.000000 0.181818 --->germline2---dash-----: 1.95e-20 -0.181736 5.83e-128 -0.177298 0.000335 (0.003350) 0.177633 (0.009040) 0.000000 0.181818 ######F1Sample###### --->fabia-------beagle1--: 9.96e-16 0.705648 1.71e-26 0.579616 0.808782 (0.385770) 0.229166 (0.152536) 1.000000 0.214286 --->fabia-------beagle2--: 5.68e-16 0.801524 7.1e-29 0.652289 0.808782 (0.385770) 0.156493 (0.193727) 1.000000 0.102302 --->fabia-------plink----: 2.33e-03 0.329632 4.44e-06 0.187722 0.808782 (0.385770) 0.621060 (0.082039) 1.000000 0.610723 --->fabia-------germline1: 5.79e-17 0.818174 5.59e-30 0.631149 0.808782 (0.385770) 0.177633 (0.009040) 1.000000 0.181818 --->fabia-------germline2: 6.48e-17 0.818162 5.59e-30 0.631133 0.808782 (0.385770) 0.177649 (0.009049) 1.000000 0.181818 --->fabia-------dash-----: 5.79e-17 0.899977 7.79e-34 0.711282 0.808782 (0.385770) 0.097500 (0.005389) 1.000000 0.100000 --->beagle1-----beagle2--: 1.12e-06 0.097615 4.08e-07 0.072672 0.229166 (0.152536) 0.156493 (0.193727) 0.214286 0.102302 --->beagle1-----plink----: 5.04e-18 -0.401572 2.47e-43 -0.391894 0.229166 (0.152536) 0.621060 (0.082039) 0.214286 0.610723 --->beagle1-----germline1: 4.43e-03 0.043229 1.04e-03 0.051533 0.229166 (0.152536) 0.177633 (0.009040) 0.214286 0.181818 --->beagle1-----germline2: 4.53e-03 0.043200 1.05e-03 0.051516 0.229166 (0.152536) 0.177649 (0.009049) 0.214286 0.181818 --->beagle1-----dash-----: 3.51e-12 0.125218 1.03e-13 0.131666 0.229166 (0.152536) 0.097500 (0.005389) 0.214286 0.100000 --->beagle2-----plink----: 1.06e-17 -0.492876 2.16e-40 -0.464567 0.156493 (0.193727) 0.621060 (0.082039) 0.102302 0.610723 --->beagle2-----germline1: 3.1e-02 -0.038919 2.8e-01 -0.021139 0.156493 (0.193727) 0.177633 (0.009040) 0.102302 0.181818 --->beagle2-----germline2: 3.1e-02 -0.038931 2.8e-01 -0.021156 0.156493 (0.193727) 0.177649 (0.009049) 0.102302 0.181818 --->beagle2-----dash-----: 1.49e-01 0.042887 3.05e-03 0.058993 0.156493 (0.193727) 0.097500 (0.005389) 0.102302 0.100000 --->plink-------germline1: 3.85e-18 0.439886 1.1e-75 0.443427 0.621060 (0.082039) 0.177633 (0.009040) 0.610723 0.181818 --->plink-------germline2: 3.86e-18 0.439861 1.11e-75 0.443411 0.621060 (0.082039) 0.177649 (0.009049) 0.610723 0.181818 --->plink-------dash-----: 3.85e-18 0.519054 1.57e-82 0.523560 0.621060 (0.082039) 0.097500 (0.005389) 0.610723 0.100000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.177633 (0.009040) 0.177649 (0.009049) 0.181818 0.181818 --->germline1---dash-----: 1.55e-20 0.081758 7.01e-135 0.080133 0.177633 (0.009040) 0.097500 (0.005389) 0.181818 0.100000 --->germline2---dash-----: 1.95e-20 0.081805 9.38e-135 0.080149 0.177649 (0.009049) 0.097500 (0.005389) 0.181818 0.100000 ######accuracySample###### --->fabia-------beagle1--: 3.85e-18 0.190000 2.56e-59 0.190250 0.990050 (0.019624) 0.799800 (0.050231) 1.000000 0.800000 --->fabia-------beagle2--: 3.24e-18 0.105040 6.45e-47 0.107150 0.990050 (0.019624) 0.882900 (0.038568) 1.000000 0.880000 --->fabia-------plink----: 3.75e-18 0.110027 2.69e-46 0.110650 0.990050 (0.019624) 0.879400 (0.037681) 1.000000 0.880000 --->fabia-------germline1: 2.43e-19 0.899947 8.19e-166 0.892550 0.990050 (0.019624) 0.097500 (0.005389) 1.000000 0.100000 --->fabia-------germline2: 2.78e-19 0.899970 7.77e-166 0.892450 0.990050 (0.019624) 0.097600 (0.005527) 1.000000 0.100000 --->fabia-------dash-----: 1e+00 0.000000 2.87e-08 -0.012728 0.990050 (0.019624) 1.002778 (0.005988) 1.000000 1.000000 --->beagle1-----beagle2--: 8.07e-17 -0.089927 1.59e-31 -0.083100 0.799800 (0.050231) 0.882900 (0.038568) 0.800000 0.880000 --->beagle1-----plink----: 2.2e-16 -0.080011 3.79e-26 -0.079600 0.799800 (0.050231) 0.879400 (0.037681) 0.800000 0.880000 --->beagle1-----germline1: 3.81e-18 0.704987 1.43e-114 0.702300 0.799800 (0.050231) 0.097500 (0.005389) 0.800000 0.100000 --->beagle1-----germline2: 3.81e-18 0.700008 1.67e-114 0.702200 0.799800 (0.050231) 0.097600 (0.005527) 0.800000 0.100000 --->beagle1-----dash-----: 3.86e-18 -0.200597 7.44e-64 -0.202978 0.799800 (0.050231) 1.002778 (0.005988) 0.800000 1.000000 --->beagle2-----plink----: 1e+00 0.000000 4.87e-01 0.003500 0.882900 (0.038568) 0.879400 (0.037681) 0.880000 0.880000 --->beagle2-----germline1: 2.5e-18 0.789980 7.77e-131 0.785400 0.882900 (0.038568) 0.097500 (0.005389) 0.880000 0.100000 --->beagle2-----germline2: 2.53e-18 0.789979 7.39e-131 0.785300 0.882900 (0.038568) 0.097600 (0.005527) 0.880000 0.100000 --->beagle2-----dash-----: 2.88e-18 -0.119945 7.72e-53 -0.119878 0.882900 (0.038568) 1.002778 (0.005988) 0.880000 1.000000 --->plink-------germline1: 3.66e-18 0.780013 5.38e-132 0.781900 0.879400 (0.037681) 0.097500 (0.005389) 0.880000 0.100000 --->plink-------germline2: 3.68e-18 0.780019 6.12e-132 0.781800 0.879400 (0.037681) 0.097600 (0.005527) 0.880000 0.100000 --->plink-------dash-----: 3.78e-18 -0.124961 1.8e-54 -0.123378 0.879400 (0.037681) 1.002778 (0.005988) 0.880000 1.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 -1e-04 0.097500 (0.005389) 0.097600 (0.005527) 0.100000 0.100000 --->germline1---dash-----: 1.55e-20 -0.900093 3.22e-190 -0.905278 0.097500 (0.005389) 1.002778 (0.005988) 0.100000 1.000000 --->germline2---dash-----: 1.95e-20 -0.900022 7.12e-190 -0.905178 0.097600 (0.005527) 1.002778 (0.005988) 0.100000 1.000000 ######FPRSample###### --->fabia-------beagle1--: 3.75e-18 -0.144469 1.7e-49 -0.148784 0.000105 (0.001053) 0.148889 (0.052235) 0.000000 0.144444 --->fabia-------beagle2--: 7.04e-16 -0.033323 1.84e-14 -0.034228 0.000105 (0.001053) 0.034333 (0.038070) 0.000000 0.022222 --->fabia-------plink----: 3.67e-18 -0.133279 6.1e-54 -0.131673 0.000105 (0.001053) 0.131778 (0.041243) 0.000000 0.133333 --->fabia-------germline1: 1.95e-20 -1.000014 3.27e-221 -1.002672 0.000105 (0.001053) 1.002778 (0.005988) 0.000000 1.000000 --->fabia-------germline2: 2.44e-20 -1.000008 3.51e-220 -1.002561 0.000105 (0.001053) 1.002667 (0.006141) 0.000000 1.000000 --->fabia-------dash-----: 1.95e-20 -0.900019 5.03e-221 -0.902395 0.000105 (0.001053) 0.902500 (0.005389) 0.000000 0.900000 --->beagle1-----beagle2--: 5.62e-17 0.122212 8.63e-36 0.114556 0.148889 (0.052235) 0.034333 (0.038070) 0.144444 0.022222 --->beagle1-----plink----: 2.4e-03 0.016707 4.9e-03 0.017111 0.148889 (0.052235) 0.131778 (0.041243) 0.144444 0.133333 --->beagle1-----germline1: 3.83e-18 -0.855594 2.23e-121 -0.853889 0.148889 (0.052235) 1.002778 (0.005988) 0.144444 1.000000 --->beagle1-----germline2: 3.84e-18 -0.855559 2.5e-121 -0.853778 0.148889 (0.052235) 1.002667 (0.006141) 0.144444 1.000000 --->beagle1-----dash-----: 3.83e-18 -0.755502 3.86e-116 -0.753611 0.148889 (0.052235) 0.902500 (0.005389) 0.144444 0.900000 --->beagle2-----plink----: 2.44e-17 -0.100014 1.2e-34 -0.097444 0.034333 (0.038070) 0.131778 (0.041243) 0.022222 0.133333 --->beagle2-----germline1: 2.65e-18 -0.977719 2.88e-141 -0.968444 0.034333 (0.038070) 1.002778 (0.005988) 0.022222 1.000000 --->beagle2-----germline2: 2.73e-18 -0.977755 2.83e-141 -0.968333 0.034333 (0.038070) 1.002667 (0.006141) 0.022222 1.000000 --->beagle2-----dash-----: 2.65e-18 -0.876676 1.28e-136 -0.868167 0.034333 (0.038070) 0.902500 (0.005389) 0.022222 0.900000 --->plink-------germline1: 3.78e-18 -0.872153 6.88e-133 -0.871000 0.131778 (0.041243) 1.002778 (0.005988) 0.133333 1.000000 --->plink-------germline2: 3.78e-18 -0.872137 7.96e-133 -0.870889 0.131778 (0.041243) 1.002667 (0.006141) 0.133333 1.000000 --->plink-------dash-----: 3.78e-18 -0.771684 1.02e-127 -0.770722 0.131778 (0.041243) 0.902500 (0.005389) 0.133333 0.900000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 0.000111 1.002778 (0.005988) 1.002667 (0.006141) 1.000000 1.000000 --->germline1---dash-----: 1.55e-20 0.100078 3.25e-222 0.100278 1.002778 (0.005988) 0.902500 (0.005389) 1.000000 0.900000 --->germline2---dash-----: 1.95e-20 0.100002 2.8e-189 0.100167 1.002667 (0.006141) 0.902500 (0.005389) 1.000000 0.900000 ######FDRSample###### --->fabia-------beagle1--: 4e-18 -0.820126 7.6e-73 -0.804895 0.010000 (0.100000) 0.814895 (0.122998) 0.000000 0.828431 --->fabia-------beagle2--: 4.97e-16 -0.874925 1.39e-33 -0.693258 0.010000 (0.100000) 0.703258 (0.372931) 0.000000 0.908907 --->fabia-------plink----: 5.35e-18 -0.545460 3.69e-63 -0.530356 0.010000 (0.100000) 0.540356 (0.088751) 0.000000 0.550000 --->fabia-------germline1: 2.02e-20 -0.900077 3.03e-96 -0.892500 0.010000 (0.100000) 0.902500 (0.005389) 0.000000 0.900000 --->fabia-------germline2: 2.53e-20 -0.900007 3.04e-96 -0.892490 0.010000 (0.100000) 0.902490 (0.005395) 0.000000 0.900000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.010000 (0.100000) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 8.72e-03 0.112489 5.06e-04 0.111637 0.814895 (0.122998) 0.703258 (0.372931) 0.828431 0.908907 --->beagle1-----plink----: 1.03e-17 0.281449 9.78e-37 0.274539 0.814895 (0.122998) 0.540356 (0.088751) 0.828431 0.550000 --->beagle1-----germline1: 1.57e-09 -0.082134 1.76e-10 -0.087605 0.814895 (0.122998) 0.902500 (0.005389) 0.828431 0.900000 --->beagle1-----germline2: 1.57e-09 -0.082134 1.77e-10 -0.087595 0.814895 (0.122998) 0.902490 (0.005395) 0.828431 0.900000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.814895 (0.122998) 0.000000 (0.000000) 0.828431 0.000000 --->beagle2-----plink----: 2.17e-04 0.185632 2.95e-05 0.162901 0.703258 (0.372931) 0.540356 (0.088751) 0.908907 0.550000 --->beagle2-----germline1: 1.72e-03 -0.150069 5.97e-07 -0.199242 0.703258 (0.372931) 0.902500 (0.005389) 0.908907 0.900000 --->beagle2-----germline2: 1.72e-03 -0.150013 5.97e-07 -0.199232 0.703258 (0.372931) 0.902490 (0.005395) 0.908907 0.900000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.703258 (0.372931) 0.000000 (0.000000) 0.908907 0.000000 --->plink-------germline1: 3.84e-18 -0.355421 4.88e-64 -0.362144 0.540356 (0.088751) 0.902500 (0.005389) 0.550000 0.900000 --->plink-------germline2: 3.85e-18 -0.355033 4.91e-64 -0.362134 0.540356 (0.088751) 0.902490 (0.005395) 0.550000 0.900000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.540356 (0.088751) 0.000000 (0.000000) 0.550000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.902500 (0.005389) 0.902490 (0.005395) 0.900000 0.900000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.902500 (0.005389) 0.000000 (0.000000) 0.900000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.902490 (0.005395) 0.000000 (0.000000) 0.900000 0.000000 ######specifitySample###### --->fabia-------beagle1--: 3.77e-18 0.144424 5.27e-48 0.146006 0.999895 (0.001053) 0.853889 (0.053307) 1.000000 0.855556 --->fabia-------beagle2--: 1.06e-15 0.027836 6.56e-13 0.031450 0.999895 (0.001053) 0.968444 (0.038025) 1.000000 0.977778 --->fabia-------plink----: 3.67e-18 0.127782 8.37e-53 0.128895 0.999895 (0.001053) 0.871000 (0.041571) 1.000000 0.866667 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.999895 (0.001053) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------germline2: 4.03e-23 1.000000 6e-281 0.999784 0.999895 (0.001053) 0.000111 (0.001111) 1.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1.18e-05 0.024895 0.999895 (0.001053) 0.975000 (0.053889) 1.000000 1.000000 --->beagle1-----beagle2--: 5.5e-17 -0.122170 8.63e-36 -0.114556 0.853889 (0.053307) 0.968444 (0.038025) 0.855556 0.977778 --->beagle1-----plink----: 2.04e-03 -0.016707 4.9e-03 -0.017111 0.853889 (0.053307) 0.871000 (0.041571) 0.855556 0.866667 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.853889 (0.053307) 0.000000 (0.000000) 0.855556 0.000000 --->beagle1-----germline2: 3.76e-18 0.855636 2.5e-121 0.853778 0.853889 (0.053307) 0.000111 (0.001111) 0.855556 0.000000 --->beagle1-----dash-----: 3.85e-16 -0.133326 5.35e-26 -0.121111 0.853889 (0.053307) 0.975000 (0.053889) 0.855556 1.000000 --->beagle2-----plink----: 2.39e-17 0.100058 1.2e-34 0.097444 0.968444 (0.038025) 0.871000 (0.041571) 0.977778 0.866667 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.968444 (0.038025) 0.000000 (0.000000) 0.977778 0.000000 --->beagle2-----germline2: 2.57e-18 0.977717 2.83e-141 0.968333 0.968444 (0.038025) 0.000111 (0.001111) 0.977778 0.000000 --->beagle2-----dash-----: 1.2e-02 -0.022150 3.38e-01 -0.006556 0.968444 (0.038025) 0.975000 (0.053889) 0.977778 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.871000 (0.041571) 0.000000 (0.000000) 0.866667 0.000000 --->plink-------germline2: 3.67e-18 0.872136 7.96e-133 0.870889 0.871000 (0.041571) 0.000111 (0.001111) 0.866667 0.000000 --->plink-------dash-----: 7.3e-16 -0.116608 4.5e-26 -0.104000 0.871000 (0.041571) 0.975000 (0.053889) 0.866667 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000111 (0.001111) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.975000 (0.053889) 0.000000 1.000000 --->germline2---dash-----: 1.95e-20 -0.999943 1.27e-126 -0.974889 0.000111 (0.001111) 0.975000 (0.053889) 0.000000 1.000000 ######sensitivitySample###### --->fabia-------beagle1--: 1.27e-13 0.599959 6.85e-20 0.490000 0.803000 (0.387808) 0.313000 (0.226816) 1.000000 0.300000 --->fabia-------beagle2--: 4.02e-16 0.849979 1.04e-31 0.690000 0.803000 (0.387808) 0.113000 (0.144008) 1.000000 0.100000 --->fabia-------plink----: 1e+00 0.000000 9.37e-05 -0.152000 0.803000 (0.387808) 0.955000 (0.071598) 1.000000 1.000000 --->fabia-------germline1: 1e+00 0.000000 2.16e-05 -0.172000 0.803000 (0.387808) 0.975000 (0.053889) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 2.16e-05 -0.172000 0.803000 (0.387808) 0.975000 (0.053889) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.803000 (0.387808) 0.000000 (0.000000) 1.000000 0.000000 --->beagle1-----beagle2--: 6.78e-14 0.250076 5.71e-21 0.200000 0.313000 (0.226816) 0.113000 (0.144008) 0.300000 0.100000 --->beagle1-----plink----: 5.12e-18 -0.650027 5.53e-48 -0.642000 0.313000 (0.226816) 0.955000 (0.071598) 0.300000 1.000000 --->beagle1-----germline1: 4.75e-18 -0.699952 1.69e-50 -0.662000 0.313000 (0.226816) 0.975000 (0.053889) 0.300000 1.000000 --->beagle1-----germline2: 4.75e-18 -0.699952 1.69e-50 -0.662000 0.313000 (0.226816) 0.975000 (0.053889) 0.300000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.313000 (0.226816) 0.000000 (0.000000) 0.300000 0.000000 --->beagle2-----plink----: 2.31e-18 -0.850022 5.34e-73 -0.842000 0.113000 (0.144008) 0.955000 (0.071598) 0.100000 1.000000 --->beagle2-----germline1: 1.87e-18 -0.899957 1.65e-76 -0.862000 0.113000 (0.144008) 0.975000 (0.053889) 0.100000 1.000000 --->beagle2-----germline2: 1.87e-18 -0.899957 1.65e-76 -0.862000 0.113000 (0.144008) 0.975000 (0.053889) 0.100000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.113000 (0.144008) 0.000000 (0.000000) 0.100000 0.000000 --->plink-------germline1: 1e+00 0.000000 6.59e-04 -0.020000 0.955000 (0.071598) 0.975000 (0.053889) 1.000000 1.000000 --->plink-------germline2: 1e+00 0.000000 6.59e-04 -0.020000 0.955000 (0.071598) 0.975000 (0.053889) 1.000000 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.955000 (0.071598) 0.000000 (0.000000) 1.000000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.975000 (0.053889) 0.975000 (0.053889) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.975000 (0.053889) 0.000000 (0.000000) 1.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.975000 (0.053889) 0.000000 (0.000000) 1.000000 0.000000 ######trueNSample###### --->fabia-------beagle1--: 3.76e-18 113 5.92e-138 113 190 ( 0.2) 76.8 ( 4.8) 190 77 --->fabia-------beagle2--: 2.56e-18 102 3.16e-148 103 190 ( 0.2) 87.2 ( 3.42) 190 88 --->fabia-------plink----: 3.66e-18 112 4.5e-148 112 190 ( 0.2) 78.4 ( 3.74) 190 78 --->fabia-------germline1: 1e+00 0 1e+00 0 190 ( 0.2) 0 ( 0) 190 0 --->fabia-------germline2: 4.03e-23 190 3.32e-292 190 190 ( 0.2) 0.01 ( 0.1) 190 0 --->fabia-------dash-----: 1.95e-20 100 2.13e-224 99.7 190 ( 0.2) 90.2 ( 0.539) 190 90 --->beagle1-----beagle2--: 5.34e-17 -11 8.63e-36 -10.3 76.8 ( 4.8) 87.2 ( 3.42) 77 88 --->beagle1-----plink----: 2.03e-03 -1.5 4.9e-03 -1.54 76.8 ( 4.8) 78.4 ( 3.74) 77 78 --->beagle1-----germline1: 1e+00 0 1e+00 0 76.8 ( 4.8) 0 ( 0) 77 0 --->beagle1-----germline2: 3.76e-18 77 2.5e-121 76.8 76.8 ( 4.8) 0.01 ( 0.1) 77 0 --->beagle1-----dash-----: 3.74e-18 -13 1.6e-49 -13.4 76.8 ( 4.8) 90.2 ( 0.539) 77 90 --->beagle2-----plink----: 1.93e-17 9 1.2e-34 8.77 87.2 ( 3.42) 78.4 ( 3.74) 88 78 --->beagle2-----germline1: 1e+00 0 1e+00 0 87.2 ( 3.42) 0 ( 0) 88 0 --->beagle2-----germline2: 2.56e-18 88 2.83e-141 87.2 87.2 ( 3.42) 0.01 ( 0.1) 88 0 --->beagle2-----dash-----: 6.57e-16 -3 1.51e-14 -3.09 87.2 ( 3.42) 90.2 ( 0.539) 88 90 --->plink-------germline1: 1e+00 0 1e+00 0 78.4 ( 3.74) 0 ( 0) 78 0 --->plink-------germline2: 3.67e-18 78.5 7.96e-133 78.4 78.4 ( 3.74) 0.01 ( 0.1) 78 0 --->plink-------dash-----: 3.66e-18 -12 5.92e-54 -11.9 78.4 ( 3.74) 90.2 ( 0.539) 78 90 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.010000 (0.100000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 90.2 ( 0.539) 0 90 --->germline2---dash-----: 1.95e-20 -90 4.04e-221 -90.2 0.01 ( 0.1) 90.2 ( 0.539) 0 90 ######falsePSample###### --->fabia-------beagle1--: 3.74e-18 -13 1.89e-49 -13.4 0.02 ( 0.2) 13.4 ( 4.7) 0 13 --->fabia-------beagle2--: 1.01e-15 -3 2.37e-14 -3.07 0.02 ( 0.2) 3.09 ( 3.43) 0 2 --->fabia-------plink----: 3.66e-18 -12 6.76e-54 -11.8 0.02 ( 0.2) 11.9 ( 3.71) 0 12 --->fabia-------germline1: 1.95e-20 -90 8.84e-219 -90.2 0.02 ( 0.2) 90.2 ( 0.539) 0 90 --->fabia-------germline2: 2.44e-20 -90 7.19e-218 -90.2 0.02 ( 0.2) 90.2 ( 0.553) 0 90 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.020000 (0.200000) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 5.34e-17 11 8.63e-36 10.3 13.4 ( 4.7) 3.09 ( 3.43) 13 2 --->beagle1-----plink----: 2.03e-03 1.5 4.9e-03 1.54 13.4 ( 4.7) 11.9 ( 3.71) 13 12 --->beagle1-----germline1: 3.76e-18 -77 2.23e-121 -76.8 13.4 ( 4.7) 90.2 ( 0.539) 13 90 --->beagle1-----germline2: 3.76e-18 -77 2.5e-121 -76.8 13.4 ( 4.7) 90.2 ( 0.553) 13 90 --->beagle1-----dash-----: 1e+00 0 1e+00 0 13.4 ( 4.7) 0 ( 0) 13 0 --->beagle2-----plink----: 1.93e-17 -9 1.2e-34 -8.77 3.09 ( 3.43) 11.9 ( 3.71) 2 12 --->beagle2-----germline1: 2.48e-18 -88 2.88e-141 -87.2 3.09 ( 3.43) 90.2 ( 0.539) 2 90 --->beagle2-----germline2: 2.56e-18 -88 2.83e-141 -87.2 3.09 ( 3.43) 90.2 ( 0.553) 2 90 --->beagle2-----dash-----: 1e+00 0 1e+00 0 3.09 ( 3.43) 0 ( 0) 2 0 --->plink-------germline1: 3.66e-18 -78.5 6.88e-133 -78.4 11.9 ( 3.71) 90.2 ( 0.539) 12 90 --->plink-------germline2: 3.67e-18 -78.5 7.96e-133 -78.4 11.9 ( 3.71) 90.2 ( 0.553) 12 90 --->plink-------dash-----: 1e+00 0 1e+00 0 11.9 ( 3.71) 0 ( 0) 12 0 --->germline1---germline2: 1e+00 0 3.2e-01 0.01 90.2 ( 0.539) 90.2 ( 0.553) 90 90 --->germline1---dash-----: 1e+00 0 1e+00 0 90.2 ( 0.539) 0 ( 0) 90 0 --->germline2---dash-----: 1e+00 0 1e+00 0 90.2 ( 0.553) 0 ( 0) 90 0 ######falseNSample###### --->fabia-------beagle1--: 3.72e-13 -5.5 2.42e-18 -4.65 1.97 ( 3.88) 6.62 ( 2.26) 0 7 --->fabia-------beagle2--: 4.54e-16 -8 9.27e-30 -6.65 1.97 ( 3.88) 8.62 ( 1.55) 0 9 --->fabia-------plink----: 1e+00 0.000000 8.51e-06 1.770000 1.970000 (3.878079) 0.200000 (0.568535) 0.000000 0.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 1.970000 (3.878079) 0.000000 (0.000000) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 1.970000 (3.878079) 0.000000 (0.000000) 0.000000 0.000000 --->fabia-------dash-----: 2.47e-17 -10 8.12e-36 -7.78 1.97 ( 3.88) 9.75 ( 0.539) 0 10 --->beagle1-----beagle2--: 5.58e-14 -2.5 5.71e-21 -2 6.62 ( 2.26) 8.62 ( 1.55) 7 9 --->beagle1-----plink----: 4.96e-18 6.5 5.53e-48 6.42 6.62 ( 2.26) 0.2 ( 0.569) 7 0 --->beagle1-----germline1: 1e+00 0 1e+00 0 6.62 ( 2.26) 0 ( 0) 7 0 --->beagle1-----germline2: 1e+00 0 1e+00 0 6.62 ( 2.26) 0 ( 0) 7 0 --->beagle1-----dash-----: 2.06e-16 -3.5 8.49e-25 -3.13 6.62 ( 2.26) 9.75 ( 0.539) 7 10 --->beagle2-----plink----: 2.29e-18 8.5 5.34e-73 8.42 8.62 ( 1.55) 0.2 ( 0.569) 9 0 --->beagle2-----germline1: 1e+00 0 1e+00 0 8.62 ( 1.55) 0 ( 0) 9 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 8.62 ( 1.55) 0 ( 0) 9 0 --->beagle2-----dash-----: 3.09e-10 -2 5.1e-12 -1.13 8.62 ( 1.55) 9.75 ( 0.539) 9 10 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.200000 (0.568535) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.200000 (0.568535) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------dash-----: 1.82e-19 -9.5 1.53e-113 -9.55 0.2 ( 0.569) 9.75 ( 0.539) 0 10 --->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) 9.75 ( 0.539) 0 10 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 9.75 ( 0.539) 0 10 ######truePSample###### --->fabia-------beagle1--: 1.18e-13 6 6.85e-20 4.9 8.03 ( 3.88) 3.13 ( 2.27) 10 3 --->fabia-------beagle2--: 3.88e-16 8.5 1.04e-31 6.9 8.03 ( 3.88) 1.13 ( 1.44) 10 1 --->fabia-------plink----: 1e+00 0 9.37e-05 -1.52 8.03 ( 3.88) 9.55 ( 0.716) 10 10 --->fabia-------germline1: 1e+00 0 2.16e-05 -1.72 8.03 ( 3.88) 9.75 ( 0.539) 10 10 --->fabia-------germline2: 1e+00 0 2.16e-05 -1.72 8.03 ( 3.88) 9.75 ( 0.539) 10 10 --->fabia-------dash-----: 3.9e-18 -658 2.41e-181 -658 8.03 ( 3.88) 667 ( 8.68) 10 667 --->beagle1-----beagle2--: 5.58e-14 2.5 5.71e-21 2 3.13 ( 2.27) 1.13 ( 1.44) 3 1 --->beagle1-----plink----: 4.96e-18 -6.5 5.53e-48 -6.42 3.13 ( 2.27) 9.55 ( 0.716) 3 10 --->beagle1-----germline1: 4.75e-18 -7 1.69e-50 -6.62 3.13 ( 2.27) 9.75 ( 0.539) 3 10 --->beagle1-----germline2: 4.75e-18 -7 1.69e-50 -6.62 3.13 ( 2.27) 9.75 ( 0.539) 3 10 --->beagle1-----dash-----: 3.9e-18 -663 3.25e-186 -663 3.13 ( 2.27) 667 ( 8.68) 3 667 --->beagle2-----plink----: 2.29e-18 -8.5 5.34e-73 -8.42 1.13 ( 1.44) 9.55 ( 0.716) 1 10 --->beagle2-----germline1: 1.86e-18 -9 1.65e-76 -8.62 1.13 ( 1.44) 9.75 ( 0.539) 1 10 --->beagle2-----germline2: 1.86e-18 -9 1.65e-76 -8.62 1.13 ( 1.44) 9.75 ( 0.539) 1 10 --->beagle2-----dash-----: 3.9e-18 -665 1.52e-187 -665 1.13 ( 1.44) 667 ( 8.68) 1 667 --->plink-------germline1: 1e+00 0 6.59e-04 -0.2 9.55 ( 0.716) 9.75 ( 0.539) 10 10 --->plink-------germline2: 1e+00 0 6.59e-04 -0.2 9.55 ( 0.716) 9.75 ( 0.539) 10 10 --->plink-------dash-----: 3.89e-18 -657 8.72e-188 -657 9.55 ( 0.716) 667 ( 8.68) 10 667 --->germline1---germline2: 1e+00 0 1e+00 0 9.75 ( 0.539) 9.75 ( 0.539) 10 10 --->germline1---dash-----: 3.89e-18 -656 3.26e-188 -657 9.75 ( 0.539) 667 ( 8.68) 10 667 --->germline2---dash-----: 3.89e-18 -656 3.26e-188 -657 9.75 ( 0.539) 667 ( 8.68) 10 667