Results: Wilcoxon-Rank-Sum Wilcoxon-median t-test t-test-mean mean1 (std) mean2 (std) median1 median2 ######Matthews###### --->fabia-------beagle1--: 3.96e-18 0.723890 3.12e-91 0.719496 0.823790 (0.073751) 0.104295 (0.042459) 0.828428 0.103228 --->fabia-------beagle2--: 3.96e-18 0.709969 2.29e-85 0.706535 0.823790 (0.073751) 0.117255 (0.062735) 0.828428 0.119288 --->fabia-------plink----: 4.42e-12 0.071336 9.9e-15 0.067270 0.823790 (0.073751) 0.756520 (0.026358) 0.828428 0.755353 --->fabia-------germline1: 3.96e-18 0.762635 9.31e-103 0.759221 0.823790 (0.073751) 0.064569 (0.010978) 0.828428 0.064760 --->fabia-------germline2: 3.96e-18 0.775637 2.55e-101 0.771482 0.823790 (0.073751) 0.052308 (0.019739) 0.828428 0.053014 --->fabia-------dash-----: 3.96e-18 0.801713 1.07e-104 0.797732 0.823790 (0.073751) 0.026058 (0.003303) 0.828428 0.026182 --->beagle1-----beagle2--: 1.07e-02 -0.014049 1.28e-02 -0.012961 0.104295 (0.042459) 0.117255 (0.062735) 0.103228 0.119288 --->beagle1-----plink----: 3.96e-18 -0.654053 1.5e-114 -0.652226 0.104295 (0.042459) 0.756520 (0.026358) 0.103228 0.755353 --->beagle1-----germline1: 1.11e-12 0.038644 3.88e-15 0.039725 0.104295 (0.042459) 0.064569 (0.010978) 0.103228 0.064760 --->beagle1-----germline2: 1.88e-14 0.050839 1.01e-18 0.051986 0.104295 (0.042459) 0.052308 (0.019739) 0.103228 0.053014 --->beagle1-----dash-----: 4.46e-18 0.077371 6e-34 0.078236 0.104295 (0.042459) 0.026058 (0.003303) 0.103228 0.026182 --->beagle2-----plink----: 3.96e-18 -0.638344 7.07e-100 -0.639265 0.117255 (0.062735) 0.756520 (0.026358) 0.119288 0.755353 --->beagle2-----germline1: 1.38e-10 0.054330 5e-13 0.052686 0.117255 (0.062735) 0.064569 (0.010978) 0.119288 0.064760 --->beagle2-----germline2: 1.54e-12 0.067665 1.43e-16 0.064947 0.117255 (0.062735) 0.052308 (0.019739) 0.119288 0.053014 --->beagle2-----dash-----: 1.06e-16 0.092433 2.86e-26 0.091197 0.117255 (0.062735) 0.026058 (0.003303) 0.119288 0.026182 --->plink-------germline1: 3.96e-18 0.691944 4.79e-138 0.691951 0.756520 (0.026358) 0.064569 (0.010978) 0.755353 0.064760 --->plink-------germline2: 3.96e-18 0.704416 6.88e-133 0.704212 0.756520 (0.026358) 0.052308 (0.019739) 0.755353 0.053014 --->plink-------dash-----: 3.96e-18 0.729969 1.55e-144 0.730462 0.756520 (0.026358) 0.026058 (0.003303) 0.755353 0.026182 --->germline1---germline2: 3.24e-10 0.012023 2.5e-11 0.012261 0.064569 (0.010978) 0.052308 (0.019739) 0.064760 0.053014 --->germline1---dash-----: 3.96e-18 0.038728 1.02e-68 0.038511 0.064569 (0.010978) 0.026058 (0.003303) 0.064760 0.026182 --->germline2---dash-----: 7.9e-17 0.026534 1.36e-26 0.026250 0.052308 (0.019739) 0.026058 (0.003303) 0.053014 0.026182 ######F1###### --->fabia-------beagle1--: 3.96e-18 0.738694 5.66e-95 0.734345 0.819548 (0.074812) 0.085203 (0.030441) 0.820206 0.083771 --->fabia-------beagle2--: 3.96e-18 0.711697 5.04e-85 0.708386 0.819548 (0.074812) 0.111162 (0.059079) 0.820206 0.109151 --->fabia-------plink----: 3.2e-14 0.090768 1.6e-19 0.087082 0.819548 (0.074812) 0.732466 (0.032038) 0.820206 0.731053 --->fabia-------germline1: 3.96e-18 0.795994 7.4e-104 0.791959 0.819548 (0.074812) 0.027589 (0.002522) 0.820206 0.027403 --->fabia-------germline2: 3.96e-18 0.793601 2.68e-103 0.789832 0.819548 (0.074812) 0.029716 (0.006087) 0.820206 0.029847 --->fabia-------dash-----: 4.89e-18 0.206667 7.67e-47 0.203047 0.819548 (0.074812) 0.616501 (0.012257) 0.820206 0.616827 --->beagle1-----beagle2--: 1.74e-06 -0.026272 3.35e-07 -0.025959 0.085203 (0.030441) 0.111162 (0.059079) 0.083771 0.109151 --->beagle1-----plink----: 3.96e-18 -0.648142 5.09e-121 -0.647263 0.085203 (0.030441) 0.732466 (0.032038) 0.083771 0.731053 --->beagle1-----germline1: 4.08e-18 0.056342 3.79e-35 0.057614 0.085203 (0.030441) 0.027589 (0.002522) 0.083771 0.027403 --->beagle1-----germline2: 4.74e-18 0.054639 3.65e-33 0.055487 0.085203 (0.030441) 0.029716 (0.006087) 0.083771 0.029847 --->beagle1-----dash-----: 3.96e-18 -0.532710 4.12e-124 -0.531298 0.085203 (0.030441) 0.616501 (0.012257) 0.083771 0.616827 --->beagle2-----plink----: 3.96e-18 -0.621433 8.95e-99 -0.621304 0.111162 (0.059079) 0.732466 (0.032038) 0.109151 0.731053 --->beagle2-----germline1: 1.22e-16 0.084222 1.53e-25 0.083573 0.111162 (0.059079) 0.027589 (0.002522) 0.109151 0.027403 --->beagle2-----germline2: 1.82e-16 0.082132 1.28e-24 0.081446 0.111162 (0.059079) 0.029716 (0.006087) 0.109151 0.029847 --->beagle2-----dash-----: 3.96e-18 -0.505041 7.58e-94 -0.505340 0.111162 (0.059079) 0.616501 (0.012257) 0.109151 0.616827 --->plink-------germline1: 3.96e-18 0.704482 1.24e-134 0.704877 0.732466 (0.032038) 0.027589 (0.002522) 0.731053 0.027403 --->plink-------germline2: 3.96e-18 0.702512 9.8e-134 0.702750 0.732466 (0.032038) 0.029716 (0.006087) 0.731053 0.029847 --->plink-------dash-----: 3.96e-18 0.116271 6.6e-59 0.115964 0.732466 (0.032038) 0.616501 (0.012257) 0.731053 0.616827 --->germline1---germline2: 1.01e-04 -0.002194 5.21e-05 -0.002127 0.027589 (0.002522) 0.029716 (0.006087) 0.027403 0.029847 --->germline1---dash-----: 3.96e-18 -0.588627 3.66e-171 -0.588912 0.027589 (0.002522) 0.616501 (0.012257) 0.027403 0.616827 --->germline2---dash-----: 3.96e-18 -0.586443 1.79e-167 -0.586786 0.029716 (0.006087) 0.616501 (0.012257) 0.029847 0.616827 ######accuracy###### --->fabia-------beagle1--: 3.96e-18 0.042668 1.22e-54 0.043137 0.998740 (0.000546) 0.955603 (0.013286) 0.998758 0.955964 --->fabia-------beagle2--: 3.96e-18 0.010936 3.09e-50 0.011083 0.998740 (0.000546) 0.987657 (0.003867) 0.998758 0.988163 --->fabia-------plink----: 3.96e-18 0.004008 2.97e-64 0.003997 0.998740 (0.000546) 0.994743 (0.000880) 0.998758 0.994683 --->fabia-------germline1: 3.96e-18 0.386855 1.09e-153 0.386822 0.998740 (0.000546) 0.611918 (0.011324) 0.998758 0.611621 --->fabia-------germline2: 3.96e-18 0.230269 6.38e-132 0.230153 0.998740 (0.000546) 0.768586 (0.011172) 0.998758 0.768488 --->fabia-------dash-----: 3.96e-18 0.614427 3.53e-170 0.614566 0.998740 (0.000546) 0.384174 (0.012326) 0.998758 0.384004 --->beagle1-----beagle2--: 3.96e-18 -0.031467 1.12e-45 -0.032054 0.955603 (0.013286) 0.987657 (0.003867) 0.955964 0.988163 --->beagle1-----plink----: 3.96e-18 -0.038657 7.25e-51 -0.039140 0.955603 (0.013286) 0.994743 (0.000880) 0.955964 0.994683 --->beagle1-----germline1: 3.96e-18 0.344064 2.12e-129 0.343685 0.955603 (0.013286) 0.611918 (0.011324) 0.955964 0.611621 --->beagle1-----germline2: 3.96e-18 0.187529 4.81e-104 0.187017 0.955603 (0.013286) 0.768586 (0.011172) 0.955964 0.768488 --->beagle1-----dash-----: 3.96e-18 0.570812 9.39e-152 0.571430 0.955603 (0.013286) 0.384174 (0.012326) 0.955964 0.384004 --->beagle2-----plink----: 3.96e-18 -0.006854 3.17e-34 -0.007086 0.987657 (0.003867) 0.994743 (0.000880) 0.988163 0.994683 --->beagle2-----germline1: 3.96e-18 0.375817 2.32e-148 0.375739 0.987657 (0.003867) 0.611918 (0.011324) 0.988163 0.611621 --->beagle2-----germline2: 3.96e-18 0.219369 6.34e-125 0.219071 0.987657 (0.003867) 0.768586 (0.011172) 0.988163 0.768488 --->beagle2-----dash-----: 3.96e-18 0.603104 7.54e-169 0.603483 0.987657 (0.003867) 0.384174 (0.012326) 0.988163 0.384004 --->plink-------germline1: 3.96e-18 0.382926 9.63e-154 0.382825 0.994743 (0.000880) 0.611918 (0.011324) 0.994683 0.611621 --->plink-------germline2: 3.96e-18 0.226273 8.25e-132 0.226157 0.994743 (0.000880) 0.768586 (0.011172) 0.994683 0.768488 --->plink-------dash-----: 3.96e-18 0.610348 3.01e-169 0.610570 0.994743 (0.000880) 0.384174 (0.012326) 0.994683 0.384004 --->germline1---germline2: 3.96e-18 -0.156719 1.67e-146 -0.156668 0.611918 (0.011324) 0.768586 (0.011172) 0.611621 0.768488 --->germline1---dash-----: 3.96e-18 0.227497 1.9e-100 0.227745 0.611918 (0.011324) 0.384174 (0.012326) 0.611621 0.384004 --->germline2---dash-----: 3.96e-18 0.384039 6.05e-124 0.384413 0.768586 (0.011172) 0.384174 (0.012326) 0.768488 0.384004 ######FPR###### --->fabia-------beagle1--: 3.96e-18 -0.038548 4.81e-49 -0.039075 0.000437 (0.000465) 0.039512 (0.013914) 0.000215 0.038267 --->fabia-------beagle2--: 7.01e-18 -0.005284 7.06e-24 -0.005526 0.000437 (0.000465) 0.005963 (0.004152) 0.000215 0.005304 --->fabia-------plink----: 3.96e-18 -0.004782 1e-72 -0.004772 0.000437 (0.000465) 0.005210 (0.000909) 0.000215 0.005276 --->fabia-------germline1: 3.96e-18 -0.388783 1.26e-153 -0.388731 0.000437 (0.000465) 0.389169 (0.011414) 0.000215 0.389390 --->fabia-------germline2: 3.96e-18 -0.229047 1.54e-131 -0.228945 0.000437 (0.000465) 0.229383 (0.011261) 0.000215 0.229374 --->fabia-------dash-----: 3.96e-18 -0.986236 5.15e-274 -0.986289 0.000437 (0.000465) 0.986726 (0.001687) 0.000215 0.986665 --->beagle1-----beagle2--: 3.96e-18 0.032929 4.28e-46 0.033549 0.039512 (0.013914) 0.005963 (0.004152) 0.038267 0.005304 --->beagle1-----plink----: 3.96e-18 0.033733 4.64e-44 0.034303 0.039512 (0.013914) 0.005210 (0.000909) 0.038267 0.005276 --->beagle1-----germline1: 3.96e-18 -0.350012 1.37e-128 -0.349656 0.039512 (0.013914) 0.389169 (0.011414) 0.038267 0.389390 --->beagle1-----germline2: 3.96e-18 -0.190430 6.29e-103 -0.189870 0.039512 (0.013914) 0.229383 (0.011261) 0.038267 0.229374 --->beagle1-----dash-----: 3.96e-18 -0.947679 5.31e-184 -0.947214 0.039512 (0.013914) 0.986726 (0.001687) 0.038267 0.986665 --->beagle2-----plink----: 1e+00 0.000000 6.86e-02 0.000753 0.005963 (0.004152) 0.005210 (0.000909) 0.005304 0.005276 --->beagle2-----germline1: 3.96e-18 -0.383312 1.55e-148 -0.383205 0.005963 (0.004152) 0.389169 (0.011414) 0.005304 0.389390 --->beagle2-----germline2: 3.96e-18 -0.223706 4.66e-125 -0.223419 0.005963 (0.004152) 0.229383 (0.011261) 0.005304 0.229374 --->beagle2-----dash-----: 3.96e-18 -0.981043 5.05e-233 -0.980763 0.005963 (0.004152) 0.986726 (0.001687) 0.005304 0.986665 --->plink-------germline1: 3.96e-18 -0.384052 1.52e-153 -0.383959 0.005210 (0.000909) 0.389169 (0.011414) 0.005276 0.389390 --->plink-------germline2: 3.96e-18 -0.224230 4.13e-131 -0.224173 0.005210 (0.000909) 0.229383 (0.011261) 0.005276 0.229374 --->plink-------dash-----: 3.96e-18 -0.981416 3.07e-268 -0.981517 0.005210 (0.000909) 0.986726 (0.001687) 0.005276 0.986665 --->germline1---germline2: 3.96e-18 0.159822 2.2e-147 0.159786 0.389169 (0.011414) 0.229383 (0.011261) 0.389390 0.229374 --->germline1---dash-----: 3.96e-18 -0.597462 7.42e-173 -0.597558 0.389169 (0.011414) 0.986726 (0.001687) 0.389390 0.986665 --->germline2---dash-----: 3.96e-18 -0.757114 7.7e-184 -0.757344 0.229383 (0.011261) 0.986726 (0.001687) 0.229374 0.986665 ######FDR###### --->fabia-------beagle1--: 3.96e-18 -0.841267 1.5e-88 -0.831585 0.117193 (0.112245) 0.948779 (0.019372) 0.064843 0.950622 --->fabia-------beagle2--: 3.96e-18 -0.730335 1.32e-61 -0.710975 0.117193 (0.112245) 0.828168 (0.154408) 0.064843 0.860408 --->fabia-------plink----: 4.08e-18 -0.311332 9.28e-48 -0.299743 0.117193 (0.112245) 0.416936 (0.041637) 0.064843 0.420791 --->fabia-------germline1: 3.96e-18 -0.876469 2.2e-90 -0.868757 0.117193 (0.112245) 0.985950 (0.001289) 0.064843 0.986042 --->fabia-------germline2: 3.96e-18 -0.875596 2.57e-90 -0.867482 0.117193 (0.112245) 0.984675 (0.003146) 0.064843 0.984633 --->fabia-------dash-----: 3.96e-18 -0.508539 5.75e-67 -0.498633 0.117193 (0.112245) 0.615826 (0.012326) 0.064843 0.615996 --->beagle1-----beagle2--: 1.4e-15 0.095048 3.92e-12 0.120610 0.948779 (0.019372) 0.828168 (0.154408) 0.950622 0.860408 --->beagle1-----plink----: 3.96e-18 0.531112 1.99e-110 0.531842 0.948779 (0.019372) 0.416936 (0.041637) 0.950622 0.420791 --->beagle1-----germline1: 3.96e-18 -0.035620 1.39e-35 -0.037172 0.948779 (0.019372) 0.985950 (0.001289) 0.950622 0.986042 --->beagle1-----germline2: 4.08e-18 -0.034459 4.46e-34 -0.035897 0.948779 (0.019372) 0.984675 (0.003146) 0.950622 0.984633 --->beagle1-----dash-----: 3.96e-18 0.334470 1.22e-114 0.332952 0.948779 (0.019372) 0.615826 (0.012326) 0.950622 0.615996 --->beagle2-----plink----: 1.1e-17 0.431651 1.02e-46 0.411232 0.828168 (0.154408) 0.416936 (0.041637) 0.860408 0.420791 --->beagle2-----germline1: 1.62e-17 -0.133033 3.75e-17 -0.157782 0.828168 (0.154408) 0.985950 (0.001289) 0.860408 0.986042 --->beagle2-----germline2: 2.92e-17 -0.132610 5.36e-17 -0.156507 0.828168 (0.154408) 0.984675 (0.003146) 0.860408 0.984633 --->beagle2-----dash-----: 1.47e-14 0.236044 1.04e-24 0.212342 0.828168 (0.154408) 0.615826 (0.012326) 0.860408 0.615996 --->plink-------germline1: 3.96e-18 -0.567834 1.89e-114 -0.569014 0.416936 (0.041637) 0.985950 (0.001289) 0.420791 0.986042 --->plink-------germline2: 3.96e-18 -0.566588 3.6e-114 -0.567739 0.416936 (0.041637) 0.984675 (0.003146) 0.420791 0.984633 --->plink-------dash-----: 3.96e-18 -0.197932 1.66e-66 -0.198890 0.416936 (0.041637) 0.615826 (0.012326) 0.420791 0.615996 --->germline1---germline2: 8.28e-06 0.001291 3.62e-06 0.001275 0.985950 (0.001289) 0.984675 (0.003146) 0.986042 0.984633 --->germline1---dash-----: 3.96e-18 0.370374 1.33e-146 0.370124 0.985950 (0.001289) 0.615826 (0.012326) 0.986042 0.615996 --->germline2---dash-----: 3.96e-18 0.369147 4.8e-145 0.368849 0.984675 (0.003146) 0.615826 (0.012326) 0.984633 0.615996 ######specifity###### --->fabia-------beagle1--: 3.96e-18 0.038567 4.81e-49 0.039075 0.999563 (0.000465) 0.960488 (0.013914) 0.999785 0.961733 --->fabia-------beagle2--: 7.01e-18 0.005286 7.06e-24 0.005526 0.999563 (0.000465) 0.994037 (0.004152) 0.999785 0.994696 --->fabia-------plink----: 3.96e-18 0.004780 1e-72 0.004772 0.999563 (0.000465) 0.994790 (0.000909) 0.999785 0.994724 --->fabia-------germline1: 3.96e-18 0.388764 1.26e-153 0.388731 0.999563 (0.000465) 0.610831 (0.011414) 0.999785 0.610610 --->fabia-------germline2: 3.96e-18 0.229064 1.54e-131 0.228945 0.999563 (0.000465) 0.770617 (0.011261) 0.999785 0.770626 --->fabia-------dash-----: 3.96e-18 0.284605 7.89e-58 0.290624 0.999563 (0.000465) 0.708938 (0.082440) 0.999785 0.716255 --->beagle1-----beagle2--: 3.96e-18 -0.032953 4.28e-46 -0.033549 0.960488 (0.013914) 0.994037 (0.004152) 0.961733 0.994696 --->beagle1-----plink----: 3.96e-18 -0.033691 4.64e-44 -0.034303 0.960488 (0.013914) 0.994790 (0.000909) 0.961733 0.994724 --->beagle1-----germline1: 3.96e-18 0.349992 1.37e-128 0.349656 0.960488 (0.013914) 0.610831 (0.011414) 0.961733 0.610610 --->beagle1-----germline2: 3.96e-18 0.190405 6.29e-103 0.189870 0.960488 (0.013914) 0.770617 (0.011261) 0.961733 0.770626 --->beagle1-----dash-----: 3.96e-18 0.246202 9.37e-53 0.251549 0.960488 (0.013914) 0.708938 (0.082440) 0.961733 0.716255 --->beagle2-----plink----: 1e+00 0.000000 6.86e-02 -0.000753 0.994037 (0.004152) 0.994790 (0.000909) 0.994696 0.994724 --->beagle2-----germline1: 3.96e-18 0.383318 1.55e-148 0.383205 0.994037 (0.004152) 0.610831 (0.011414) 0.994696 0.610610 --->beagle2-----germline2: 3.96e-18 0.223704 4.66e-125 0.223419 0.994037 (0.004152) 0.770617 (0.011261) 0.994696 0.770626 --->beagle2-----dash-----: 3.96e-18 0.279046 4.59e-57 0.285098 0.994037 (0.004152) 0.708938 (0.082440) 0.994696 0.716255 --->plink-------germline1: 3.96e-18 0.384056 1.52e-153 0.383959 0.994790 (0.000909) 0.610831 (0.011414) 0.994724 0.610610 --->plink-------germline2: 3.96e-18 0.224227 4.13e-131 0.224173 0.994790 (0.000909) 0.770617 (0.011261) 0.994724 0.770626 --->plink-------dash-----: 3.96e-18 0.279862 4.01e-57 0.285852 0.994790 (0.000909) 0.708938 (0.082440) 0.994724 0.716255 --->germline1---germline2: 3.96e-18 -0.159850 2.2e-147 -0.159786 0.610831 (0.011414) 0.770617 (0.011261) 0.610610 0.770626 --->germline1---dash-----: 5.14e-14 -0.104109 3.21e-20 -0.098107 0.610831 (0.011414) 0.708938 (0.082440) 0.610610 0.716255 --->germline2---dash-----: 2.17e-10 0.055893 4.95e-11 0.061679 0.770617 (0.011261) 0.708938 (0.082440) 0.770626 0.716255 ######sensitivity###### --->fabia-------beagle1--: 4.46e-18 0.503667 8.26e-51 0.491568 0.775801 (0.091276) 0.284233 (0.121853) 0.789978 0.267943 --->fabia-------beagle2--: 3.96e-18 0.670710 1.2e-72 0.664656 0.775801 (0.091276) 0.111145 (0.076662) 0.789978 0.099378 --->fabia-------plink----: 3.96e-18 -0.209214 9.37e-43 -0.212468 0.775801 (0.091276) 0.988269 (0.010022) 0.789978 0.991781 --->fabia-------germline1: 9.3e-02 0.018662 1.49e-01 0.014721 0.775801 (0.091276) 0.761080 (0.061650) 0.789978 0.771413 --->fabia-------germline2: 7.01e-18 0.290312 3.63e-38 0.286369 0.775801 (0.091276) 0.489432 (0.097200) 0.789978 0.488566 --->fabia-------dash-----: 3.96e-18 -611203 2.93e-170 -611375 0.776 ( 0.0913) 611376 ( 12224) 0.79 611528 --->beagle1-----beagle2--: 3.96e-18 0.167242 1.2e-36 0.173088 0.284233 (0.121853) 0.111145 (0.076662) 0.267943 0.099378 --->beagle1-----plink----: 3.96e-18 -0.710644 2.23e-77 -0.704035 0.284233 (0.121853) 0.988269 (0.010022) 0.267943 0.991781 --->beagle1-----germline1: 3.96e-18 -0.483530 6.26e-57 -0.476847 0.284233 (0.121853) 0.761080 (0.061650) 0.267943 0.771413 --->beagle1-----germline2: 6.2e-15 -0.211402 2.02e-21 -0.205199 0.284233 (0.121853) 0.489432 (0.097200) 0.267943 0.488566 --->beagle1-----dash-----: 3.96e-18 -611202 2.93e-170 -611375 0.284 ( 0.122) 611376 ( 12224) 0.268 611528 --->beagle2-----plink----: 3.96e-18 -0.882062 2.75e-106 -0.877124 0.111145 (0.076662) 0.988269 (0.010022) 0.099378 0.991781 --->beagle2-----germline1: 3.96e-18 -0.657144 3.87e-84 -0.649935 0.111145 (0.076662) 0.761080 (0.061650) 0.099378 0.771413 --->beagle2-----germline2: 3.96e-18 -0.382818 1.13e-51 -0.378288 0.111145 (0.076662) 0.489432 (0.097200) 0.099378 0.488566 --->beagle2-----dash-----: 3.96e-18 -611200 2.93e-170 -611376 0.111 ( 0.0767) 611376 ( 12224) 0.0994 611528 --->plink-------germline1: 3.96e-18 0.224751 2.92e-61 0.227189 0.988269 (0.010022) 0.761080 (0.061650) 0.991781 0.771413 --->plink-------germline2: 3.96e-18 0.497137 5.43e-74 0.498836 0.988269 (0.010022) 0.489432 (0.097200) 0.991781 0.488566 --->plink-------dash-----: 3.96e-18 -611201 2.93e-170 -611375 0.988 ( 0.01) 611376 ( 12224) 0.992 611528 --->germline1---germline2: 3.96e-18 0.271004 9.79e-56 0.271647 0.761080 (0.061650) 0.489432 (0.097200) 0.771413 0.488566 --->germline1---dash-----: 3.96e-18 -611203 2.93e-170 -611375 0.761 ( 0.0616) 611376 ( 12224) 0.771 611528 --->germline2---dash-----: 3.96e-18 -611199 2.93e-170 -611375 0.489 ( 0.0972) 611376 ( 12224) 0.489 611528 ######trueN###### --->fabia-------beagle1--: 3.96e-18 1037702 6.74e-188 1038213 1991759 ( 924) 953546 ( 13807) 1992186 954812 --->fabia-------beagle2--: 3.96e-18 1e+06 8.16e-238 1e+06 1991759 ( 924) 986853 ( 4158) 1992186 987454 --->fabia-------plink----: 3.96e-18 1e+06 2.5e-291 1e+06 1991759 ( 924) 987601 ( 952) 1992186 987560 --->fabia-------germline1: 3.96e-18 1385350 2.46e-208 1385342 1991759 ( 924) 606417 ( 11315) 1992186 606086 --->fabia-------germline2: 3.96e-18 1226822 8.16e-204 1226711 1991759 ( 924) 765048 ( 11168) 1992186 765264 --->fabia-------dash-----: 3.96e-18 1610130 7.14e-212 1610362 1991759 ( 924) 381397 ( 12245) 1992186 381306 --->beagle1-----beagle2--: 3.96e-18 -32698 4.32e-46 -33307 953546 ( 13807) 986853 ( 4158) 954812 987454 --->beagle1-----plink----: 3.96e-18 -33470 4.67e-44 -34055 953546 ( 13807) 987601 ( 952) 954812 987560 --->beagle1-----germline1: 3.96e-18 347460 1.41e-128 347129 953546 ( 13807) 606417 ( 11315) 954812 606086 --->beagle1-----germline2: 3.96e-18 189027 6.35e-103 188498 953546 ( 13807) 765048 ( 11168) 954812 765264 --->beagle1-----dash-----: 3.96e-18 571593 3.48e-151 572149 953546 ( 13807) 381397 ( 12245) 954812 381306 --->beagle2-----plink----: 2.77e-01 -441 6.86e-02 -748 986853 ( 4158) 987601 ( 952) 987454 987560 --->beagle2-----germline1: 3.96e-18 380533 1.74e-148 380436 986853 ( 4158) 606417 ( 11315) 987454 606086 --->beagle2-----germline2: 3.96e-18 222062 4.89e-125 221805 986853 ( 4158) 765048 ( 11168) 987454 765264 --->beagle2-----dash-----: 3.96e-18 605065 4.58e-169 605456 986853 ( 4158) 381397 ( 12245) 987454 381306 --->plink-------germline1: 3.96e-18 381291 1.7e-153 381184 987601 ( 952) 606417 ( 11315) 987560 606086 --->plink-------germline2: 3.96e-18 222605 4.31e-131 222553 987601 ( 952) 765048 ( 11168) 987560 765264 --->plink-------dash-----: 3.96e-18 605997 2.64e-169 606204 987601 ( 952) 381397 ( 12245) 987560 381306 --->germline1---germline2: 3.96e-18 -158682 2.38e-147 -158631 606417 ( 11315) 765048 ( 11168) 606086 765264 --->germline1---dash-----: 3.96e-18 224758 4.09e-100 225019 606417 ( 11315) 381397 ( 12245) 606086 381306 --->germline2---dash-----: 3.96e-18 383319 5.41e-124 383650 765048 ( 11168) 381397 ( 12245) 765264 381306 ######falseP###### --->fabia-------beagle1--: 3.96e-18 -37816 1.17e-48 -38355 872 ( 927) 39227 ( 13814) 428 37992 --->fabia-------beagle2--: 5.9e-17 -4866 2.14e-21 -5048 872 ( 927) 5920 ( 4121) 428 5265 --->fabia-------plink----: 3.96e-18 -4359 1.04e-59 -4300 872 ( 927) 5172 ( 903) 428 5237 --->fabia-------germline1: 3.96e-18 -385499 2.38e-153 -385485 872 ( 927) 386356 ( 11344) 428 386505 --->fabia-------germline2: 3.96e-18 -227015 2.61e-131 -226853 872 ( 927) 227725 ( 11184) 428 227776 --->fabia-------dash-----: 1.6e-13 -1312 1.56e-18 -1230 872 ( 927) 2101 ( 590) 428 2038 --->beagle1-----beagle2--: 3.96e-18 32683 4.32e-46 33307 39227 ( 13814) 5920 ( 4121) 37992 5265 --->beagle1-----plink----: 3.96e-18 33470 4.67e-44 34055 39227 ( 13814) 5172 ( 903) 37992 5237 --->beagle1-----germline1: 3.96e-18 -347460 1.41e-128 -347129 39227 ( 13814) 386356 ( 11344) 37992 386505 --->beagle1-----germline2: 3.96e-18 -189027 6.35e-103 -188498 39227 ( 13814) 227725 ( 11184) 37992 227776 --->beagle1-----dash-----: 3.96e-18 36612 1.58e-47 37126 39227 ( 13814) 2101 ( 590) 37992 2038 --->beagle2-----plink----: 2.77e-01 441 6.86e-02 748 5920 ( 4121) 5172 ( 903) 5265 5237 --->beagle2-----germline1: 3.96e-18 -380533 1.74e-148 -380436 5920 ( 4121) 386356 ( 11344) 5265 386505 --->beagle2-----germline2: 3.96e-18 -222059 4.89e-125 -221805 5920 ( 4121) 227725 ( 11184) 5265 227776 --->beagle2-----dash-----: 5.38e-13 3565 5.54e-15 3819 5920 ( 4121) 2101 ( 590) 5265 2038 --->plink-------germline1: 3.96e-18 -381291 1.7e-153 -381184 5172 ( 903) 386356 ( 11344) 5237 386505 --->plink-------germline2: 3.96e-18 -222600 4.31e-131 -222553 5172 ( 903) 227725 ( 11184) 5237 227776 --->plink-------dash-----: 3.96e-18 3078 1.68e-47 3071 5172 ( 903) 2101 ( 590) 5237 2038 --->germline1---germline2: 3.96e-18 158682 2.38e-147 158631 386356 ( 11344) 227725 ( 11184) 386505 227776 --->germline1---dash-----: 3.96e-18 384382 3.33e-153 384255 386356 ( 11344) 2101 ( 590) 386505 2038 --->germline2---dash-----: 3.96e-18 225729 4.08e-131 225624 227725 ( 11184) 2101 ( 590) 227776 2038 ######falseN###### --->fabia-------beagle1--: 4.46e-18 -3601 2.78e-50 -3521 1649 ( 663) 5170 ( 875) 1528 5296 --->fabia-------beagle2--: 3.96e-18 -4819 2.14e-71 -4774 1649 ( 663) 6423 ( 571) 1528 6428 --->fabia-------plink----: 3.96e-18 1542 3.41e-43 1564 1649 ( 663) 84.7 ( 72.4) 1528 61 --->fabia-------germline1: 1.87e-01 -109 3e-01 -76.9 1649 ( 663) 1726 ( 444) 1528 1641 --->fabia-------germline2: 8.65e-18 -2071 2.47e-37 -2040 1649 ( 663) 3689 ( 703) 1528 3627 --->fabia-------dash-----: 3.96e-18 -3536 1.89e-58 -3477 1649 ( 663) 5126 ( 630) 1528 5150 --->beagle1-----beagle2--: 3.96e-18 -1211 1.62e-36 -1253 5170 ( 875) 6423 ( 571) 5296 6428 --->beagle1-----plink----: 3.96e-18 5133 1.37e-77 5085 5170 ( 875) 84.7 ( 72.4) 5296 61 --->beagle1-----germline1: 3.96e-18 3488 7.86e-57 3444 5170 ( 875) 1726 ( 444) 5296 1641 --->beagle1-----germline2: 6.37e-15 1534 2.46e-21 1481 5170 ( 875) 3689 ( 703) 5296 3627 --->beagle1-----dash-----: 5.74e-01 64 6.7e-01 44.2 5170 ( 875) 5126 ( 630) 5296 5150 --->beagle2-----plink----: 3.96e-18 6369 5.48e-105 6338 6423 ( 571) 84.7 ( 72.4) 6428 61 --->beagle2-----germline1: 3.96e-18 4737 4.32e-83 4697 6423 ( 571) 1726 ( 444) 6428 1641 --->beagle2-----germline2: 3.96e-18 2760 2.34e-51 2734 6423 ( 571) 3689 ( 703) 6428 3627 --->beagle2-----dash-----: 1.57e-17 1289 2.34e-29 1297 6423 ( 571) 5126 ( 630) 6428 5150 --->plink-------germline1: 3.96e-18 -1623 2.36e-61 -1641 84.7 ( 72.4) 1726 ( 444) 61 1641 --->plink-------germline2: 3.96e-18 -3587 6.39e-74 -3604 84.7 ( 72.4) 3689 ( 703) 61 3627 --->plink-------dash-----: 3.96e-18 -5078 3.02e-90 -5041 84.7 ( 72.4) 5126 ( 630) 61 5150 --->germline1---germline2: 3.96e-18 -1954 1.99e-55 -1963 1726 ( 444) 3689 ( 703) 1641 3627 --->germline1---dash-----: 3.96e-18 -3453 1.3e-55 -3400 1726 ( 444) 5126 ( 630) 1641 5150 --->germline2---dash-----: 7.92e-15 -1499 2.17e-21 -1437 3689 ( 703) 5126 ( 630) 3627 5150 ######trueP###### --->fabia-------beagle1--: 4.33e-18 3755 5.81e-51 3664 5721 ( 710) 2057 ( 890) 5778 1894 --->fabia-------beagle2--: 3.96e-18 4964 3.59e-72 4917 5721 ( 710) 804 ( 558) 5778 710 --->fabia-------plink----: 3.96e-18 -1393 3.54e-38 -1422 5721 ( 710) 7142 ( 199) 5778 7166 --->fabia-------germline1: 2.82e-03 248 4.84e-03 219 5721 ( 710) 5501 ( 481) 5778 5504 --->fabia-------germline2: 6.22e-18 2220 4.85e-39 2182 5721 ( 710) 3538 ( 716) 5778 3608 --->fabia-------dash-----: 3.96e-18 5743 4.52e-92 5721 5721 ( 710) 0.00143 ( 0.00469) 5778 0 --->beagle1-----beagle2--: 3.96e-18 1211 1.62e-36 1253 2057 ( 890) 804 ( 558) 1894 710 --->beagle1-----plink----: 3.96e-18 -5133 1.37e-77 -5085 2057 ( 890) 7142 ( 199) 1894 7166 --->beagle1-----germline1: 3.96e-18 -3488 7.86e-57 -3444 2057 ( 890) 5501 ( 481) 1894 5504 --->beagle1-----germline2: 6.37e-15 -1534 2.46e-21 -1481 2057 ( 890) 3538 ( 716) 1894 3608 --->beagle1-----dash-----: 3.96e-18 2014 1.16e-41 2057 2057 ( 890) 0.00143 ( 0.00469) 1894 0 --->beagle2-----plink----: 3.96e-18 -6369 5.48e-105 -6338 804 ( 558) 7142 ( 199) 710 7166 --->beagle2-----germline1: 3.96e-18 -4737 4.32e-83 -4697 804 ( 558) 5501 ( 481) 710 5504 --->beagle2-----germline2: 3.96e-18 -2760 2.34e-51 -2734 804 ( 558) 3538 ( 716) 710 3608 --->beagle2-----dash-----: 8.56e-17 828 4.98e-26 804 804 ( 558) 0.00143 ( 0.00469) 710 0 --->plink-------germline1: 3.96e-18 1623 2.36e-61 1641 7142 ( 199) 5501 ( 481) 7166 5504 --->plink-------germline2: 3.96e-18 3587 6.39e-74 3604 7142 ( 199) 3538 ( 716) 7166 3608 --->plink-------dash-----: 3.95e-18 7146 6.7e-156 7142 7142 ( 199) 0.00143 ( 0.00469) 7166 0 --->germline1---germline2: 3.96e-18 1954 1.99e-55 1963 5501 ( 481) 3538 ( 716) 5504 3608 --->germline1---dash-----: 3.96e-18 5519 5.56e-107 5501 5501 ( 481) 0.00143 ( 0.00469) 5504 0 --->germline2---dash-----: 3.96e-18 3553 1.35e-71 3538 3538 ( 716) 0.00143 ( 0.00469) 3608 0 ######MatthewsSnps###### --->fabia-------beagle1--: 3.96e-18 0.687589 9.37e-72 0.681633 0.758438 (0.088009) 0.076804 (0.093809) 0.766250 0.079785 --->fabia-------beagle2--: 3.96e-18 0.566817 6.03e-55 0.572119 0.758438 (0.088009) 0.186319 (0.144410) 0.766250 0.197348 --->fabia-------plink----: 8.14e-15 0.134051 2.4e-22 0.127805 0.758438 (0.088009) 0.630633 (0.059159) 0.766250 0.631832 --->fabia-------germline1: 3.96e-18 0.764835 5.13e-95 0.758255 0.758438 (0.088009) 0.000183 (0.001828) 0.766250 0.000000 --->fabia-------germline2: 3.96e-18 0.762942 2e-94 0.756053 0.758438 (0.088009) 0.002384 (0.006851) 0.766250 0.000000 --->fabia-------dash-----: 3.96e-18 0.589028 4.37e-83 0.581823 0.758438 (0.088009) 0.176615 (0.009732) 0.766250 0.181818 --->beagle1-----beagle2--: 1.2e-09 -0.114157 1.24e-10 -0.109514 0.076804 (0.093809) 0.186319 (0.144410) 0.079785 0.197348 --->beagle1-----plink----: 3.96e-18 -0.551345 1.92e-71 -0.553829 0.076804 (0.093809) 0.630633 (0.059159) 0.079785 0.631832 --->beagle1-----germline1: 1.18e-10 0.079861 1.12e-12 0.076621 0.076804 (0.093809) 0.000183 (0.001828) 0.079785 0.000000 --->beagle1-----germline2: 4.03e-10 0.078433 5.13e-12 0.074420 0.076804 (0.093809) 0.002384 (0.006851) 0.079785 0.000000 --->beagle1-----dash-----: 2.2e-14 -0.096706 8.25e-18 -0.099811 0.076804 (0.093809) 0.176615 (0.009732) 0.079785 0.181818 --->beagle2-----plink----: 3.96e-18 -0.442183 4.04e-50 -0.444314 0.186319 (0.144410) 0.630633 (0.059159) 0.197348 0.631832 --->beagle2-----germline1: 1.7e-15 0.186951 8.12e-23 0.186136 0.186319 (0.144410) 0.000183 (0.001828) 0.197348 0.000000 --->beagle2-----germline2: 1.95e-15 0.184708 1.87e-22 0.183934 0.186319 (0.144410) 0.002384 (0.006851) 0.197348 0.000000 --->beagle2-----dash-----: 4.38e-01 0.010562 5.06e-01 0.009704 0.186319 (0.144410) 0.176615 (0.009732) 0.197348 0.181818 --->plink-------germline1: 3.96e-18 0.627725 5.97e-104 0.630450 0.630633 (0.059159) 0.000183 (0.001828) 0.631832 0.000000 --->plink-------germline2: 3.96e-18 0.625489 7.36e-104 0.628248 0.630633 (0.059159) 0.002384 (0.006851) 0.631832 0.000000 --->plink-------dash-----: 3.96e-18 0.450692 4.15e-89 0.454018 0.630633 (0.059159) 0.176615 (0.009732) 0.631832 0.181818 --->germline1---germline2: 1e+00 0.000000 1.33e-03 -0.002202 0.000183 (0.001828) 0.002384 (0.006851) 0.000000 0.000000 --->germline1---dash-----: 1.61e-19 -0.180384 2.09e-126 -0.176432 0.000183 (0.001828) 0.176615 (0.009732) 0.000000 0.181818 --->germline2---dash-----: 4.63e-19 -0.175894 6.87e-119 -0.174230 0.002384 (0.006851) 0.176615 (0.009732) 0.000000 0.181818 ######F1Snps###### --->fabia-------beagle1--: 3.96e-18 0.583135 9.42e-82 0.577105 0.770721 (0.080002) 0.193616 (0.031899) 0.774587 0.189710 --->fabia-------beagle2--: 3.96e-18 0.501337 9.64e-60 0.502614 0.770721 (0.080002) 0.268107 (0.103882) 0.774587 0.265980 --->fabia-------plink----: 2.88e-16 0.149635 2.23e-26 0.143643 0.770721 (0.080002) 0.627078 (0.063247) 0.774587 0.630023 --->fabia-------germline1: 3.96e-18 0.599930 6.67e-88 0.594137 0.770721 (0.080002) 0.176584 (0.009763) 0.774587 0.181818 --->fabia-------germline2: 3.96e-18 0.599832 6.96e-88 0.594064 0.770721 (0.080002) 0.176657 (0.009782) 0.774587 0.181818 --->fabia-------dash-----: 3.96e-18 0.678893 1.2e-93 0.673616 0.770721 (0.080002) 0.097105 (0.005675) 0.774587 0.100000 --->beagle1-----beagle2--: 1.81e-10 -0.074027 4.32e-11 -0.074491 0.193616 (0.031899) 0.268107 (0.103882) 0.189710 0.265980 --->beagle1-----plink----: 3.96e-18 -0.431366 1.68e-80 -0.433462 0.193616 (0.031899) 0.627078 (0.063247) 0.189710 0.630023 --->beagle1-----germline1: 4.05e-07 0.013817 2.32e-07 0.017032 0.193616 (0.031899) 0.176584 (0.009763) 0.189710 0.181818 --->beagle1-----germline2: 4.52e-07 0.013766 2.59e-07 0.016959 0.193616 (0.031899) 0.176657 (0.009782) 0.189710 0.181818 --->beagle1-----dash-----: 3.96e-18 0.093396 5.54e-53 0.096511 0.193616 (0.031899) 0.097105 (0.005675) 0.189710 0.100000 --->beagle2-----plink----: 4.08e-18 -0.359877 3.85e-51 -0.358971 0.268107 (0.103882) 0.627078 (0.063247) 0.265980 0.630023 --->beagle2-----germline1: 1.54e-12 0.089732 3.88e-14 0.091523 0.268107 (0.103882) 0.176584 (0.009763) 0.265980 0.181818 --->beagle2-----germline2: 1.58e-12 0.089688 4.01e-14 0.091450 0.268107 (0.103882) 0.176657 (0.009782) 0.265980 0.181818 --->beagle2-----dash-----: 2.6e-17 0.168794 3.9e-30 0.171002 0.268107 (0.103882) 0.097105 (0.005675) 0.265980 0.100000 --->plink-------germline1: 3.96e-18 0.447142 2.09e-86 0.450495 0.627078 (0.063247) 0.176584 (0.009763) 0.630023 0.181818 --->plink-------germline2: 3.96e-18 0.447109 2.08e-86 0.450422 0.627078 (0.063247) 0.176657 (0.009782) 0.630023 0.181818 --->plink-------dash-----: 3.96e-18 0.527055 1.54e-93 0.529973 0.627078 (0.063247) 0.097105 (0.005675) 0.630023 0.100000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.176584 (0.009763) 0.176657 (0.009782) 0.181818 0.181818 --->germline1---dash-----: 1.61e-19 0.081167 3.81e-128 0.079479 0.176584 (0.009763) 0.097105 (0.005675) 0.181818 0.100000 --->germline2---dash-----: 4.63e-19 0.081296 5.88e-128 0.079552 0.176657 (0.009782) 0.097105 (0.005675) 0.181818 0.100000 ######accuracySnps###### --->fabia-------beagle1--: 3.96e-18 0.711517 1.89e-77 0.698889 0.958761 (0.016814) 0.259872 (0.118905) 0.961800 0.235500 --->fabia-------beagle2--: 3.96e-18 0.203890 2.82e-31 0.211066 0.958761 (0.016814) 0.747695 (0.123963) 0.961800 0.761650 --->fabia-------plink----: 4.2e-18 0.077147 3.68e-41 0.076616 0.958761 (0.016814) 0.882145 (0.030865) 0.961800 0.885100 --->fabia-------germline1: 3.95e-18 0.863234 2.72e-166 0.861861 0.958761 (0.016814) 0.096900 (0.005841) 0.961800 0.100000 --->fabia-------germline2: 3.95e-18 0.862732 7.19e-166 0.861414 0.958761 (0.016814) 0.097347 (0.006119) 0.961800 0.100000 --->fabia-------dash-----: 3.96e-18 0.776226 3.38e-167 0.774497 0.958761 (0.016814) 0.184264 (0.001158) 0.961800 0.183673 --->beagle1-----beagle2--: 3.96e-18 -0.493246 1.34e-52 -0.487823 0.259872 (0.118905) 0.747695 (0.123963) 0.235500 0.761650 --->beagle1-----plink----: 3.96e-18 -0.634156 1.27e-73 -0.622273 0.259872 (0.118905) 0.882145 (0.030865) 0.235500 0.885100 --->beagle1-----germline1: 4.08e-18 0.150615 1.03e-24 0.162972 0.259872 (0.118905) 0.096900 (0.005841) 0.235500 0.100000 --->beagle1-----germline2: 4.33e-18 0.150318 1.19e-24 0.162525 0.259872 (0.118905) 0.097347 (0.006119) 0.235500 0.100000 --->beagle1-----dash-----: 1.81e-07 0.063003 6.47e-09 0.075608 0.259872 (0.118905) 0.184264 (0.001158) 0.235500 0.183673 --->beagle2-----plink----: 5.86e-16 -0.126416 2.72e-19 -0.134450 0.747695 (0.123963) 0.882145 (0.030865) 0.761650 0.885100 --->beagle2-----germline1: 3.96e-18 0.657490 6.05e-74 0.650795 0.747695 (0.123963) 0.096900 (0.005841) 0.761650 0.100000 --->beagle2-----germline2: 3.96e-18 0.657051 6.69e-74 0.650348 0.747695 (0.123963) 0.097347 (0.006119) 0.761650 0.100000 --->beagle2-----dash-----: 3.96e-18 0.570590 3.69e-68 0.563431 0.747695 (0.123963) 0.184264 (0.001158) 0.761650 0.183673 --->plink-------germline1: 3.95e-18 0.785360 7.11e-139 0.785245 0.882145 (0.030865) 0.096900 (0.005841) 0.885100 0.100000 --->plink-------germline2: 3.96e-18 0.784956 6.92e-139 0.784798 0.882145 (0.030865) 0.097347 (0.006119) 0.885100 0.100000 --->plink-------dash-----: 3.96e-18 0.697771 1.73e-136 0.697881 0.882145 (0.030865) 0.184264 (0.001158) 0.885100 0.183673 --->germline1---germline2: 1e+00 0.000000 5.05e-03 -0.000447 0.096900 (0.005841) 0.097347 (0.006119) 0.100000 0.100000 --->germline1---dash-----: 1.61e-19 -0.083698 9.08e-111 -0.087364 0.096900 (0.005841) 0.184264 (0.001158) 0.100000 0.183673 --->germline2---dash-----: 4.63e-19 -0.083718 4.58e-109 -0.086917 0.097347 (0.006119) 0.184264 (0.001158) 0.100000 0.183673 ######FPRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.148967 3.41e-77 -0.146579 0.002629 (0.003132) 0.149208 (0.025556) 0.001102 0.155316 --->fabia-------beagle2--: 7.85e-18 -0.037070 5.54e-25 -0.037951 0.002629 (0.003132) 0.040580 (0.027486) 0.001102 0.036847 --->fabia-------plink----: 3.96e-18 -0.021394 3.52e-53 -0.021366 0.002629 (0.003132) 0.023995 (0.006299) 0.001102 0.023357 --->fabia-------germline1: 3.83e-18 -0.182071 1.02e-172 -0.181678 0.002629 (0.003132) 0.184306 (0.001192) 0.001102 0.183673 --->fabia-------germline2: 3.89e-18 -0.181907 1.89e-172 -0.181586 0.002629 (0.003132) 0.184215 (0.001249) 0.001102 0.183673 --->fabia-------dash-----: 3.85e-18 -0.899690 3.8e-212 -0.900480 0.002629 (0.003132) 0.903108 (0.005800) 0.001102 0.900000 --->beagle1-----beagle2--: 3.96e-18 0.109801 1.93e-53 0.108628 0.149208 (0.025556) 0.040580 (0.027486) 0.155316 0.036847 --->beagle1-----plink----: 3.96e-18 0.127644 5.16e-71 0.125213 0.149208 (0.025556) 0.023995 (0.006299) 0.155316 0.023357 --->beagle1-----germline1: 4.08e-18 -0.032602 8.71e-25 -0.035099 0.149208 (0.025556) 0.184306 (0.001192) 0.155316 0.183673 --->beagle1-----germline2: 4.33e-18 -0.032532 9.93e-25 -0.035007 0.149208 (0.025556) 0.184215 (0.001249) 0.155316 0.183673 --->beagle1-----dash-----: 3.96e-18 -0.751409 1.46e-147 -0.753901 0.149208 (0.025556) 0.903108 (0.005800) 0.155316 0.900000 --->beagle2-----plink----: 2.95e-07 0.014949 1.03e-08 0.016585 0.040580 (0.027486) 0.023995 (0.006299) 0.036847 0.023357 --->beagle2-----germline1: 3.96e-18 -0.145082 7.78e-74 -0.143726 0.040580 (0.027486) 0.184306 (0.001192) 0.036847 0.183673 --->beagle2-----germline2: 3.96e-18 -0.145033 8.63e-74 -0.143635 0.040580 (0.027486) 0.184215 (0.001249) 0.036847 0.183673 --->beagle2-----dash-----: 3.96e-18 -0.863649 4.75e-149 -0.862529 0.040580 (0.027486) 0.903108 (0.005800) 0.036847 0.900000 --->plink-------germline1: 3.96e-18 -0.160361 6.69e-139 -0.160311 0.023995 (0.006299) 0.184306 (0.001192) 0.023357 0.183673 --->plink-------germline2: 3.96e-18 -0.160270 6.51e-139 -0.160220 0.023995 (0.006299) 0.184215 (0.001249) 0.023357 0.183673 --->plink-------dash-----: 3.96e-18 -0.878490 4.55e-197 -0.879114 0.023995 (0.006299) 0.903108 (0.005800) 0.023357 0.900000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.184306 (0.001192) 0.184215 (0.001249) 0.183673 0.183673 --->germline1---dash-----: 1.61e-19 -0.716565 3.83e-219 -0.718802 0.184306 (0.001192) 0.903108 (0.005800) 0.183673 0.900000 --->germline2---dash-----: 4.63e-19 -0.717253 3.37e-219 -0.718893 0.184215 (0.001249) 0.903108 (0.005800) 0.183673 0.900000 ######FDRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.766565 1.96e-75 -0.759738 0.131423 (0.138563) 0.891161 (0.019398) 0.072167 0.894392 --->fabia-------beagle2--: 6.34e-18 -0.645558 6.64e-51 -0.625828 0.131423 (0.138563) 0.757250 (0.174535) 0.072167 0.796742 --->fabia-------plink----: 4.08e-18 -0.417232 5.96e-49 -0.408066 0.131423 (0.138563) 0.539488 (0.069135) 0.072167 0.540120 --->fabia-------germline1: 3.83e-18 -0.776182 1.75e-76 -0.771704 0.131423 (0.138563) 0.903127 (0.005819) 0.072167 0.900000 --->fabia-------germline2: 3.89e-18 -0.776158 1.76e-76 -0.771660 0.131423 (0.138563) 0.903083 (0.005830) 0.072167 0.900000 --->fabia-------dash-----: 1.22e-14 0.160734 1.49e-15 0.131375 0.131423 (0.138563) 4.8e-05 (0.000180) 0.072167 0.000000 --->beagle1-----beagle2--: 1.01e-14 0.104926 9.31e-12 0.133910 0.891161 (0.019398) 0.757250 (0.174535) 0.894392 0.796742 --->beagle1-----plink----: 3.96e-18 0.347934 2e-71 0.351673 0.891161 (0.019398) 0.539488 (0.069135) 0.894392 0.540120 --->beagle1-----germline1: 3.17e-09 -0.009412 3.78e-09 -0.011966 0.891161 (0.019398) 0.903127 (0.005819) 0.894392 0.900000 --->beagle1-----germline2: 3.45e-09 -0.009370 4.23e-09 -0.011922 0.891161 (0.019398) 0.903083 (0.005830) 0.894392 0.900000 --->beagle1-----dash-----: 3.96e-18 0.893273 1.08e-166 0.891113 0.891161 (0.019398) 4.8e-05 (0.000180) 0.894392 0.000000 --->beagle2-----plink----: 4.88e-14 0.240601 9.57e-22 0.217762 0.757250 (0.174535) 0.539488 (0.069135) 0.796742 0.540120 --->beagle2-----germline1: 9.46e-16 -0.115835 5.65e-13 -0.145877 0.757250 (0.174535) 0.903127 (0.005819) 0.796742 0.900000 --->beagle2-----germline2: 9.73e-16 -0.115753 5.73e-13 -0.145833 0.757250 (0.174535) 0.903083 (0.005830) 0.796742 0.900000 --->beagle2-----dash-----: 5.78e-18 0.789177 3.12e-66 0.757202 0.757250 (0.174535) 4.8e-05 (0.000180) 0.796742 0.000000 --->plink-------germline1: 3.96e-18 -0.358894 5.29e-74 -0.363639 0.539488 (0.069135) 0.903127 (0.005819) 0.540120 0.900000 --->plink-------germline2: 3.96e-18 -0.358839 5.29e-74 -0.363595 0.539488 (0.069135) 0.903083 (0.005830) 0.540120 0.900000 --->plink-------dash-----: 3.96e-18 0.543899 1.01e-90 0.539440 0.539488 (0.069135) 4.8e-05 (0.000180) 0.540120 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.903127 (0.005819) 0.903083 (0.005830) 0.900000 0.900000 --->germline1---dash-----: 1.61e-19 0.900010 3.12e-219 0.903079 0.903127 (0.005819) 4.8e-05 (0.000180) 0.900000 0.000000 --->germline2---dash-----: 4.63e-19 0.900022 3.84e-219 0.903035 0.903083 (0.005830) 4.8e-05 (0.000180) 0.900000 0.000000 ######specifitySnps###### --->fabia-------beagle1--: 3.96e-18 0.148933 3.41e-77 0.146579 0.181684 (0.003433) 0.035105 (0.025449) 0.183112 0.028357 --->fabia-------beagle2--: 7.85e-18 0.037022 5.54e-25 0.037951 0.181684 (0.003433) 0.143732 (0.027543) 0.183112 0.146827 --->fabia-------plink----: 3.96e-18 0.021394 3.52e-53 0.021366 0.181684 (0.003433) 0.160318 (0.006651) 0.183112 0.160531 --->fabia-------germline1: 3.81e-18 0.182069 1.02e-172 0.181678 0.181684 (0.003433) 6.12e-06 (6.12e-05) 0.183112 0.000000 --->fabia-------germline2: 3.87e-18 0.181935 1.89e-172 0.181586 0.181684 (0.003433) 9.73e-05 (0.000322) 0.183112 0.000000 --->fabia-------dash-----: 3.83e-18 -0.816268 4.64e-113 -0.787016 0.181684 (0.003433) 0.968700 (0.058169) 0.183112 1.000000 --->beagle1-----beagle2--: 3.96e-18 -0.109805 1.93e-53 -0.108628 0.035105 (0.025449) 0.143732 (0.027543) 0.028357 0.146827 --->beagle1-----plink----: 3.96e-18 -0.127633 5.16e-71 -0.125213 0.035105 (0.025449) 0.160318 (0.006651) 0.028357 0.160531 --->beagle1-----germline1: 4.08e-18 0.032646 8.71e-25 0.035099 0.035105 (0.025449) 6.12e-06 (6.12e-05) 0.028357 0.000000 --->beagle1-----germline2: 4.33e-18 0.032510 9.93e-25 0.035007 0.035105 (0.025449) 9.73e-05 (0.000322) 0.028357 0.000000 --->beagle1-----dash-----: 3.96e-18 -0.943974 8.55e-119 -0.933595 0.035105 (0.025449) 0.968700 (0.058169) 0.028357 1.000000 --->beagle2-----plink----: 2.92e-07 -0.014957 1.03e-08 -0.016585 0.143732 (0.027543) 0.160318 (0.006651) 0.146827 0.160531 --->beagle2-----germline1: 3.96e-18 0.145053 7.78e-74 0.143726 0.143732 (0.027543) 6.12e-06 (6.12e-05) 0.146827 0.000000 --->beagle2-----germline2: 3.96e-18 0.145022 8.63e-74 0.143635 0.143732 (0.027543) 9.73e-05 (0.000322) 0.146827 0.000000 --->beagle2-----dash-----: 3.96e-18 -0.838523 9.96e-111 -0.824968 0.143732 (0.027543) 0.968700 (0.058169) 0.146827 1.000000 --->plink-------germline1: 3.95e-18 0.160357 6.69e-139 0.160311 0.160318 (0.006651) 6.12e-06 (6.12e-05) 0.160531 0.000000 --->plink-------germline2: 3.96e-18 0.160267 6.51e-139 0.160220 0.160318 (0.006651) 9.73e-05 (0.000322) 0.160531 0.000000 --->plink-------dash-----: 3.96e-18 -0.832838 2.84e-113 -0.808382 0.160318 (0.006651) 0.968700 (0.058169) 0.160531 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 6.12e-06 (6.12e-05) 9.73e-05 (0.000322) 0.000000 0.000000 --->germline1---dash-----: 1.17e-19 -0.999646 4.79e-123 -0.968694 6.12e-06 (6.12e-05) 0.968700 (0.058169) 0.000000 1.000000 --->germline2---dash-----: 4.12e-19 -0.998958 4.71e-123 -0.968603 9.73e-05 (0.000322) 0.968700 (0.058169) 0.000000 1.000000 ######sensitivitySnps###### --->fabia-------beagle1--: 3.6e-14 -0.206051 4.52e-20 -0.193480 0.685110 (0.095096) 0.878590 (0.140819) 0.687500 0.907000 --->fabia-------beagle2--: 4.3e-13 0.257932 3.44e-17 0.251050 0.685110 (0.095096) 0.434060 (0.219345) 0.687500 0.400000 --->fabia-------plink----: 3.95e-18 -0.275981 3.03e-52 -0.280780 0.685110 (0.095096) 0.965890 (0.057897) 0.687500 0.998000 --->fabia-------germline1: 3.95e-18 -0.278429 1.41e-52 -0.283590 0.685110 (0.095096) 0.968700 (0.058169) 0.687500 1.000000 --->fabia-------germline2: 3.95e-18 -0.278429 1.41e-52 -0.283590 0.685110 (0.095096) 0.968700 (0.058169) 0.687500 1.000000 --->fabia-------dash-----: 6.8e-08 0.672459 6.25e-02 -1.664890 0.685110 (0.095096) 2.350000 (8.839049) 0.687500 0.000000 --->beagle1-----beagle2--: 2.53e-17 0.467066 3.92e-36 0.444530 0.878590 (0.140819) 0.434060 (0.219345) 0.907000 0.400000 --->beagle1-----plink----: 1.19e-07 -0.105554 8.29e-09 -0.087300 0.878590 (0.140819) 0.965890 (0.057897) 0.907000 0.998000 --->beagle1-----germline1: 4.83e-09 -0.194565 2.73e-09 -0.090110 0.878590 (0.140819) 0.968700 (0.058169) 0.907000 1.000000 --->beagle1-----germline2: 4.83e-09 -0.194565 2.73e-09 -0.090110 0.878590 (0.140819) 0.968700 (0.058169) 0.907000 1.000000 --->beagle1-----dash-----: 5.77e-08 0.884059 9.99e-02 -1.471410 0.878590 (0.140819) 2.350000 (8.839049) 0.907000 0.000000 --->beagle2-----plink----: 5.71e-18 -0.534583 1.09e-43 -0.531830 0.434060 (0.219345) 0.965890 (0.057897) 0.400000 0.998000 --->beagle2-----germline1: 7.12e-18 -0.545465 6.95e-44 -0.534640 0.434060 (0.219345) 0.968700 (0.058169) 0.400000 1.000000 --->beagle2-----germline2: 7.12e-18 -0.545465 6.95e-44 -0.534640 0.434060 (0.219345) 0.968700 (0.058169) 0.400000 1.000000 --->beagle2-----dash-----: 8.77e-08 0.399917 3.26e-02 -1.915940 0.434060 (0.219345) 2.350000 (8.839049) 0.400000 0.000000 --->plink-------germline1: 2.5e-07 -0.007007 5.9e-06 -0.002810 0.965890 (0.057897) 0.968700 (0.058169) 0.998000 1.000000 --->plink-------germline2: 2.5e-07 -0.007007 5.9e-06 -0.002810 0.965890 (0.057897) 0.968700 (0.058169) 0.998000 1.000000 --->plink-------dash-----: 4.92e-08 0.982040 1.21e-01 -1.384110 0.965890 (0.057897) 2.350000 (8.839049) 0.998000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.968700 (0.058169) 0.968700 (0.058169) 1.000000 1.000000 --->germline1---dash-----: 1.93e-08 0.983969 1.22e-01 -1.381300 0.968700 (0.058169) 2.350000 (8.839049) 1.000000 0.000000 --->germline2---dash-----: 1.93e-08 0.983969 1.22e-01 -1.381300 0.968700 (0.058169) 2.350000 (8.839049) 1.000000 0.000000 ######trueNSnps###### --->fabia-------beagle1--: 3.96e-18 7299 3.41e-77 7182 8902 ( 168) 1720 ( 1247) 8972 1390 --->fabia-------beagle2--: 7.85e-18 1815 5.54e-25 1860 8902 ( 168) 7043 ( 1350) 8972 7194 --->fabia-------plink----: 3.96e-18 1050 3.52e-53 1047 8902 ( 168) 7856 ( 326) 8972 7866 --->fabia-------germline1: 3.81e-18 8921 1.02e-172 8902 8902 ( 168) 0.3 ( 3) 8972 0 --->fabia-------germline2: 3.87e-18 8914 1.89e-172 8898 8902 ( 168) 4.77 ( 15.8) 8972 0 --->fabia-------dash-----: 5.95e-14 -149 9.3e-13 -126 8902 ( 168) 9029 ( 56.7) 8972 9000 --->beagle1-----beagle2--: 3.96e-18 -5381 1.93e-53 -5323 1720 ( 1247) 7043 ( 1350) 1390 7194 --->beagle1-----plink----: 3.96e-18 -6254 5.16e-71 -6135 1720 ( 1247) 7856 ( 326) 1390 7866 --->beagle1-----germline1: 4.08e-18 1598 8.71e-25 1720 1720 ( 1247) 0.3 ( 3) 1390 0 --->beagle1-----germline2: 4.33e-18 1595 9.93e-25 1715 1720 ( 1247) 4.77 ( 15.8) 1390 0 --->beagle1-----dash-----: 3.96e-18 -7430 1.55e-78 -7309 1720 ( 1247) 9029 ( 56.7) 1390 9000 --->beagle2-----plink----: 2.95e-07 -735 1.03e-08 -813 7043 ( 1350) 7856 ( 326) 7194 7866 --->beagle2-----germline1: 3.96e-18 7109 7.78e-74 7043 7043 ( 1350) 0.3 ( 3) 7194 0 --->beagle2-----germline2: 3.96e-18 7106 8.63e-74 7038 7043 ( 1350) 4.77 ( 15.8) 7194 0 --->beagle2-----dash-----: 5.78e-18 -1939 9.36e-27 -1986 7043 ( 1350) 9029 ( 56.7) 7194 9000 --->plink-------germline1: 3.95e-18 7857 6.69e-139 7855 7856 ( 326) 0.3 ( 3) 7866 0 --->plink-------germline2: 3.95e-18 7853 6.51e-139 7851 7856 ( 326) 4.77 ( 15.8) 7866 0 --->plink-------dash-----: 3.95e-18 -1174 6.78e-61 -1173 7856 ( 326) 9029 ( 56.7) 7866 9000 --->germline1---germline2: 1e+00 0.000000 5.05e-03 -4.470000 0.300000 (3.000000) 4.770000 (15.787001) 0.000000 0.000000 --->germline1---dash-----: 1.61e-19 -9000 1.04e-219 -9029 0.3 ( 3) 9029 ( 56.7) 0 9000 --->germline2---dash-----: 4.63e-19 -9000 1.33e-217 -9024 4.77 ( 15.8) 9029 ( 56.7) 0 9000 ######falsePSnps###### --->fabia-------beagle1--: 3.96e-18 -7299 3.41e-77 -7182 129 ( 153) 7311 ( 1252) 54 7610 --->fabia-------beagle2--: 7.85e-18 -1816 5.54e-25 -1860 129 ( 153) 1988 ( 1347) 54 1806 --->fabia-------plink----: 3.96e-18 -1050 3.52e-53 -1047 129 ( 153) 1176 ( 309) 54 1144 --->fabia-------germline1: 3.81e-18 -8921 1.02e-172 -8902 129 ( 153) 9031 ( 58.4) 54 9000 --->fabia-------germline2: 3.87e-18 -8914 1.89e-172 -8898 129 ( 153) 9027 ( 61.2) 54 9000 --->fabia-------dash-----: 1e+00 0 1e+00 0 129 ( 153) 0 ( 0) 54 0 --->beagle1-----beagle2--: 3.96e-18 5381 1.93e-53 5323 7311 ( 1252) 1988 ( 1347) 7610 1806 --->beagle1-----plink----: 3.96e-18 6254 5.16e-71 6135 7311 ( 1252) 1176 ( 309) 7610 1144 --->beagle1-----germline1: 4.08e-18 -1598 8.71e-25 -1720 7311 ( 1252) 9031 ( 58.4) 7610 9000 --->beagle1-----germline2: 4.33e-18 -1594 9.93e-25 -1715 7311 ( 1252) 9027 ( 61.2) 7610 9000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 7311 ( 1252) 0 ( 0) 7610 0 --->beagle2-----plink----: 2.95e-07 735 1.03e-08 813 1988 ( 1347) 1176 ( 309) 1806 1144 --->beagle2-----germline1: 3.96e-18 -7109 7.78e-74 -7043 1988 ( 1347) 9031 ( 58.4) 1806 9000 --->beagle2-----germline2: 3.96e-18 -7105 8.63e-74 -7038 1988 ( 1347) 9027 ( 61.2) 1806 9000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 1988 ( 1347) 0 ( 0) 1806 0 --->plink-------germline1: 3.95e-18 -7857 6.69e-139 -7855 1176 ( 309) 9031 ( 58.4) 1144 9000 --->plink-------germline2: 3.95e-18 -7853 6.51e-139 -7851 1176 ( 309) 9027 ( 61.2) 1144 9000 --->plink-------dash-----: 1e+00 0 1e+00 0 1176 ( 309) 0 ( 0) 1144 0 --->germline1---germline2: 1e+00 0 5.05e-03 4.47 9031 ( 58.4) 9027 ( 61.2) 9000 9000 --->germline1---dash-----: 1e+00 0 1e+00 0 9031 ( 58.4) 0 ( 0) 9000 0 --->germline2---dash-----: 1e+00 0 1e+00 0 9027 ( 61.2) 0 ( 0) 9000 0 ######falseNSnps###### --->fabia-------beagle1--: 3.51e-14 206 4.52e-20 193 284 ( 91.9) 90.1 ( 138) 282 0 --->fabia-------beagle2--: 4.3e-13 -258 3.44e-17 -251 284 ( 91.9) 535 ( 218) 282 600 --->fabia-------plink----: 3.95e-18 276 3.03e-52 281 284 ( 91.9) 2.81 ( 5.87) 282 0 --->fabia-------germline1: 1e+00 0 1e+00 0 284 ( 91.9) 0 ( 0) 282 0 --->fabia-------germline2: 1e+00 0 1e+00 0 284 ( 91.9) 0 ( 0) 282 0 --->fabia-------dash-----: 3.95e-18 -688 2.41e-87 -685 284 ( 91.9) 969 ( 58.2) 282 1000 --->beagle1-----beagle2--: 2.46e-17 -467 3.92e-36 -445 90.1 ( 138) 535 ( 218) 0 600 --->beagle1-----plink----: 1e+00 0.000000 8.29e-09 87.300000 90.110000 (137.803322) 2.810000 (5.868414) 0.000000 0.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 90.110000 (137.803322) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 90.110000 (137.803322) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----dash-----: 2.51e-18 -900 2.72e-81 -879 90.1 ( 138) 969 ( 58.2) 0 1000 --->beagle2-----plink----: 5.68e-18 535 1.09e-43 532 535 ( 218) 2.81 ( 5.87) 600 0 --->beagle2-----germline1: 1e+00 0 1e+00 0 535 ( 218) 0 ( 0) 600 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 535 ( 218) 0 ( 0) 600 0 --->beagle2-----dash-----: 6.91e-18 -426 3.5e-36 -434 535 ( 218) 969 ( 58.2) 600 1000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 2.810000 (5.868414) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 2.810000 (5.868414) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------dash-----: 1.64e-18 -987 4.04e-123 -966 2.81 ( 5.87) 969 ( 58.2) 0 1000 --->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) 969 ( 58.2) 0 1000 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 969 ( 58.2) 0 1000 ######truePSnps###### --->fabia-------beagle1--: 3.51e-14 -206 4.52e-20 -193 685 ( 95.1) 879 ( 141) 688 907 --->fabia-------beagle2--: 4.3e-13 258 3.44e-17 251 685 ( 95.1) 434 ( 219) 688 400 --->fabia-------plink----: 3.95e-18 -276 3.03e-52 -281 685 ( 95.1) 966 ( 57.9) 688 998 --->fabia-------germline1: 3.95e-18 -278 1.41e-52 -284 685 ( 95.1) 969 ( 58.2) 688 1000 --->fabia-------germline2: 3.95e-18 -278 1.41e-52 -284 685 ( 95.1) 969 ( 58.2) 688 1000 --->fabia-------dash-----: 1e+00 0 1e+00 0 685 ( 95.1) 0 ( 0) 688 0 --->beagle1-----beagle2--: 2.46e-17 467 3.92e-36 445 879 ( 141) 434 ( 219) 907 400 --->beagle1-----plink----: 1.19e-07 -106 8.29e-09 -87.3 879 ( 141) 966 ( 57.9) 907 998 --->beagle1-----germline1: 4.83e-09 -195 2.73e-09 -90.1 879 ( 141) 969 ( 58.2) 907 1000 --->beagle1-----germline2: 4.83e-09 -195 2.73e-09 -90.1 879 ( 141) 969 ( 58.2) 907 1000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 879 ( 141) 0 ( 0) 907 0 --->beagle2-----plink----: 5.68e-18 -535 1.09e-43 -532 434 ( 219) 966 ( 57.9) 400 998 --->beagle2-----germline1: 6.99e-18 -545 6.95e-44 -535 434 ( 219) 969 ( 58.2) 400 1000 --->beagle2-----germline2: 6.99e-18 -545 6.95e-44 -535 434 ( 219) 969 ( 58.2) 400 1000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 434 ( 219) 0 ( 0) 400 0 --->plink-------germline1: 2.5e-07 -7 5.9e-06 -2.81 966 ( 57.9) 969 ( 58.2) 998 1000 --->plink-------germline2: 2.5e-07 -7 5.9e-06 -2.81 966 ( 57.9) 969 ( 58.2) 998 1000 --->plink-------dash-----: 1e+00 0 1e+00 0 966 ( 57.9) 0 ( 0) 998 0 --->germline1---germline2: 1e+00 0 1e+00 0 969 ( 58.2) 969 ( 58.2) 1000 1000 --->germline1---dash-----: 1e+00 0 1e+00 0 969 ( 58.2) 0 ( 0) 1000 0 --->germline2---dash-----: 1e+00 0 1e+00 0 969 ( 58.2) 0 ( 0) 1000 0 ######MatthewsSample###### --->fabia-------beagle1--: 3.96e-18 0.673618 5.37e-64 0.666977 0.958532 (0.057177) 0.291555 (0.136535) 1.000000 0.279395 --->fabia-------beagle2--: 3.95e-18 0.704853 9.81e-69 0.712036 0.958532 (0.057177) 0.246496 (0.131407) 1.000000 0.258192 --->fabia-------plink----: 3.23e-16 0.123988 1.28e-26 0.120772 0.958532 (0.057177) 0.837760 (0.057875) 1.000000 0.840112 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.958532 (0.057177) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.958532 (0.057177) 0.000000 (0.000000) 1.000000 0.000000 --->fabia-------dash-----: 3.86e-18 0.393938 9.94e-80 0.386360 0.958532 (0.057177) 0.572172 (0.023381) 1.000000 0.571429 --->beagle1-----beagle2--: 1.15e-03 0.043931 5.82e-04 0.045059 0.291555 (0.136535) 0.246496 (0.131407) 0.279395 0.258192 --->beagle1-----plink----: 3.96e-18 -0.548469 8.21e-61 -0.546206 0.291555 (0.136535) 0.837760 (0.057875) 0.279395 0.840112 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.291555 (0.136535) 0.000000 (0.000000) 0.279395 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.291555 (0.136535) 0.000000 (0.000000) 0.279395 0.000000 --->beagle1-----dash-----: 5.51e-18 -0.282293 3.52e-37 -0.280618 0.291555 (0.136535) 0.572172 (0.023381) 0.279395 0.571429 --->beagle2-----plink----: 3.96e-18 -0.581640 7.48e-65 -0.591265 0.246496 (0.131407) 0.837760 (0.057875) 0.258192 0.840112 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.246496 (0.131407) 0.000000 (0.000000) 0.258192 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.246496 (0.131407) 0.000000 (0.000000) 0.258192 0.000000 --->beagle2-----dash-----: 3.94e-18 -0.316078 6.55e-43 -0.325677 0.246496 (0.131407) 0.572172 (0.023381) 0.258192 0.571429 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.837760 (0.057875) 0.000000 (0.000000) 0.840112 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.837760 (0.057875) 0.000000 (0.000000) 0.840112 0.000000 --->plink-------dash-----: 3.94e-18 0.265630 1.37e-66 0.265588 0.837760 (0.057875) 0.572172 (0.023381) 0.840112 0.571429 --->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) 0.572172 (0.023381) 0.000000 0.571429 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.572172 (0.023381) 0.000000 0.571429 ######F1Sample###### --->fabia-------beagle1--: 3.95e-18 0.480377 8.27e-57 0.477643 0.965018 (0.049480) 0.487375 (0.118359) 1.000000 0.484360 --->fabia-------beagle2--: 3.95e-18 0.747687 6.45e-74 0.743378 0.965018 (0.049480) 0.221641 (0.121345) 1.000000 0.212766 --->fabia-------plink----: 2.32e-13 0.067112 5.36e-17 0.062897 0.965018 (0.049480) 0.902122 (0.035492) 1.000000 0.901769 --->fabia-------germline1: 3.86e-18 0.398894 2.59e-85 0.392846 0.965018 (0.049480) 0.572172 (0.023381) 1.000000 0.571429 --->fabia-------germline2: 3.86e-18 0.398894 2.59e-85 0.392846 0.965018 (0.049480) 0.572172 (0.023381) 1.000000 0.571429 --->fabia-------dash-----: 3.86e-18 0.570036 7.37e-101 0.563918 0.965018 (0.049480) 0.401100 (0.022870) 1.000000 0.400000 --->beagle1-----beagle2--: 4.08e-18 0.267983 1.46e-45 0.265734 0.487375 (0.118359) 0.221641 (0.121345) 0.484360 0.212766 --->beagle1-----plink----: 3.96e-18 -0.413798 4.19e-56 -0.414747 0.487375 (0.118359) 0.902122 (0.035492) 0.484360 0.901769 --->beagle1-----germline1: 6.13e-09 -0.085944 1.9e-10 -0.084798 0.487375 (0.118359) 0.572172 (0.023381) 0.484360 0.571429 --->beagle1-----germline2: 6.13e-09 -0.085944 1.9e-10 -0.084798 0.487375 (0.118359) 0.572172 (0.023381) 0.484360 0.571429 --->beagle1-----dash-----: 3.1e-09 0.086637 9.98e-11 0.086275 0.487375 (0.118359) 0.401100 (0.022870) 0.484360 0.400000 --->beagle2-----plink----: 3.96e-18 -0.682719 2.13e-75 -0.680481 0.221641 (0.121345) 0.902122 (0.035492) 0.212766 0.901769 --->beagle2-----germline1: 3.94e-18 -0.353770 7.5e-49 -0.350532 0.221641 (0.121345) 0.572172 (0.023381) 0.212766 0.571429 --->beagle2-----germline2: 3.94e-18 -0.353770 7.5e-49 -0.350532 0.221641 (0.121345) 0.572172 (0.023381) 0.212766 0.571429 --->beagle2-----dash-----: 1.67e-16 -0.182875 6.09e-26 -0.179459 0.221641 (0.121345) 0.401100 (0.022870) 0.212766 0.400000 --->plink-------germline1: 3.94e-18 0.329328 8.36e-95 0.329949 0.902122 (0.035492) 0.572172 (0.023381) 0.901769 0.571429 --->plink-------germline2: 3.94e-18 0.329328 8.36e-95 0.329949 0.902122 (0.035492) 0.572172 (0.023381) 0.901769 0.571429 --->plink-------dash-----: 3.94e-18 0.500450 8.14e-113 0.501022 0.902122 (0.035492) 0.401100 (0.022870) 0.901769 0.400000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.572172 (0.023381) 0.572172 (0.023381) 0.571429 0.571429 --->germline1---dash-----: 3.13e-18 0.171226 1.18e-234 0.171072 0.572172 (0.023381) 0.401100 (0.022870) 0.571429 0.400000 --->germline2---dash-----: 3.13e-18 0.171226 1.18e-234 0.171072 0.572172 (0.023381) 0.401100 (0.022870) 0.571429 0.400000 ######accuracySample###### --->fabia-------beagle1--: 3.92e-18 0.314957 2.71e-70 0.312200 0.985600 (0.019890) 0.673400 (0.057106) 1.000000 0.670000 --->fabia-------beagle2--: 3.86e-18 0.339994 2.39e-85 0.338700 0.985600 (0.019890) 0.646900 (0.042060) 1.000000 0.640000 --->fabia-------plink----: 1.31e-17 0.074962 1.37e-33 0.073300 0.985600 (0.019890) 0.912300 (0.034137) 1.000000 0.915000 --->fabia-------germline1: 3.79e-18 0.585019 8.56e-127 0.584500 0.985600 (0.019890) 0.401100 (0.022870) 1.000000 0.400000 --->fabia-------germline2: 3.79e-18 0.585019 8.56e-127 0.584500 0.985600 (0.019890) 0.401100 (0.022870) 1.000000 0.400000 --->fabia-------dash-----: 3.86e-18 0.852815 1.29e-163 0.852511 0.985600 (0.019890) 0.133089 (0.005082) 1.000000 0.133333 --->beagle1-----beagle2--: 1.9e-06 0.030000 2.49e-07 0.026500 0.673400 (0.057106) 0.646900 (0.042060) 0.670000 0.640000 --->beagle1-----plink----: 3.89e-18 -0.240015 2.88e-60 -0.238900 0.673400 (0.057106) 0.912300 (0.034137) 0.670000 0.915000 --->beagle1-----germline1: 3.92e-18 0.270042 2.69e-65 0.272300 0.673400 (0.057106) 0.401100 (0.022870) 0.670000 0.400000 --->beagle1-----germline2: 3.92e-18 0.270042 2.69e-65 0.272300 0.673400 (0.057106) 0.401100 (0.022870) 0.670000 0.400000 --->beagle1-----dash-----: 3.95e-18 0.538898 3.22e-99 0.540311 0.673400 (0.057106) 0.133089 (0.005082) 0.670000 0.133333 --->beagle2-----plink----: 3.87e-18 -0.265070 3.59e-72 -0.265400 0.646900 (0.042060) 0.912300 (0.034137) 0.640000 0.915000 --->beagle2-----germline1: 3.85e-18 0.244940 8.87e-66 0.245800 0.646900 (0.042060) 0.401100 (0.022870) 0.640000 0.400000 --->beagle2-----germline2: 3.85e-18 0.244940 8.87e-66 0.245800 0.646900 (0.042060) 0.401100 (0.022870) 0.640000 0.400000 --->beagle2-----dash-----: 3.92e-18 0.513255 2.88e-112 0.513811 0.646900 (0.042060) 0.133089 (0.005082) 0.640000 0.133333 --->plink-------germline1: 3.73e-18 0.510053 7.66e-112 0.511200 0.912300 (0.034137) 0.401100 (0.022870) 0.915000 0.400000 --->plink-------germline2: 3.73e-18 0.510053 7.66e-112 0.511200 0.912300 (0.034137) 0.401100 (0.022870) 0.915000 0.400000 --->plink-------dash-----: 3.94e-18 0.779963 1.05e-135 0.779211 0.912300 (0.034137) 0.133089 (0.005082) 0.915000 0.133333 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.401100 (0.022870) 0.401100 (0.022870) 0.400000 0.400000 --->germline1---dash-----: 3.13e-18 0.266705 1.85e-99 0.268011 0.401100 (0.022870) 0.133089 (0.005082) 0.400000 0.133333 --->germline2---dash-----: 3.13e-18 0.266705 1.85e-99 0.268011 0.401100 (0.022870) 0.133089 (0.005082) 0.400000 0.133333 ######FPRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.019267 (0.007928) 0.000000 0.017778 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000978 (0.001796) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.019200 (0.007590) 0.000000 0.017778 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.133089 (0.005082) 0.000000 0.133333 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.133089 (0.005082) 0.000000 0.133333 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.598900 (0.022870) 0.000000 0.600000 --->beagle1-----beagle2--: 3.8e-18 0.017824 1.23e-40 0.018289 0.019267 (0.007928) 0.000978 (0.001796) 0.017778 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.019267 (0.007928) 0.019200 (0.007590) 0.017778 0.017778 --->beagle1-----germline1: 3.93e-18 -0.114375 7.83e-113 -0.113822 0.019267 (0.007928) 0.133089 (0.005082) 0.017778 0.133333 --->beagle1-----germline2: 3.93e-18 -0.114375 7.83e-113 -0.113822 0.019267 (0.007928) 0.133089 (0.005082) 0.017778 0.133333 --->beagle1-----dash-----: 3.93e-18 -0.579430 5.92e-141 -0.579633 0.019267 (0.007928) 0.598900 (0.022870) 0.017778 0.600000 --->beagle2-----plink----: 3.81e-18 -0.017790 3.04e-43 -0.018222 0.000978 (0.001796) 0.019200 (0.007590) 0.000000 0.017778 --->beagle2-----germline1: 3.6e-18 -0.132176 3.04e-139 -0.132111 0.000978 (0.001796) 0.133089 (0.005082) 0.000000 0.133333 --->beagle2-----germline2: 3.6e-18 -0.132176 3.04e-139 -0.132111 0.000978 (0.001796) 0.133089 (0.005082) 0.000000 0.133333 --->beagle2-----dash-----: 3.6e-18 -0.597826 3.64e-142 -0.597922 0.000978 (0.001796) 0.598900 (0.022870) 0.000000 0.600000 --->plink-------germline1: 3.94e-18 -0.113352 2.82e-112 -0.113889 0.019200 (0.007590) 0.133089 (0.005082) 0.017778 0.133333 --->plink-------germline2: 3.94e-18 -0.113352 2.82e-112 -0.113889 0.019200 (0.007590) 0.133089 (0.005082) 0.017778 0.133333 --->plink-------dash-----: 3.94e-18 -0.578930 7.4e-140 -0.579700 0.019200 (0.007590) 0.598900 (0.022870) 0.017778 0.600000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.133089 (0.005082) 0.133089 (0.005082) 0.133333 0.133333 --->germline1---dash-----: 3.13e-18 -0.466644 1.84e-142 -0.465811 0.133089 (0.005082) 0.598900 (0.022870) 0.133333 0.600000 --->germline2---dash-----: 3.13e-18 -0.466644 1.84e-142 -0.465811 0.133089 (0.005082) 0.598900 (0.022870) 0.133333 0.600000 ######FDRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.350619 (0.113009) 0.000000 0.350676 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.109527 (0.237718) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.174164 (0.059372) 0.000000 0.177124 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.598900 (0.022870) 0.000000 0.600000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.598900 (0.022870) 0.000000 0.600000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 6.19e-12 0.275957 4.01e-17 0.241092 0.350619 (0.113009) 0.109527 (0.237718) 0.350676 0.000000 --->beagle1-----plink----: 1.37e-16 0.180187 1.79e-26 0.176456 0.350619 (0.113009) 0.174164 (0.059372) 0.350676 0.177124 --->beagle1-----germline1: 3.95e-18 -0.246405 8.3e-41 -0.248281 0.350619 (0.113009) 0.598900 (0.022870) 0.350676 0.600000 --->beagle1-----germline2: 3.95e-18 -0.246405 8.3e-41 -0.248281 0.350619 (0.113009) 0.598900 (0.022870) 0.350676 0.600000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.350619 (0.113009) 0.000000 (0.000000) 0.350676 0.000000 --->beagle2-----plink----: 1.83e-06 -0.124926 8.78e-03 -0.064637 0.109527 (0.237718) 0.174164 (0.059372) 0.000000 0.177124 --->beagle2-----germline1: 4.03e-17 -0.579917 3.71e-37 -0.489373 0.109527 (0.237718) 0.598900 (0.022870) 0.000000 0.600000 --->beagle2-----germline2: 4.03e-17 -0.579917 3.71e-37 -0.489373 0.109527 (0.237718) 0.598900 (0.022870) 0.000000 0.600000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.109527 (0.237718) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------germline1: 3.94e-18 -0.423324 2.99e-87 -0.424736 0.174164 (0.059372) 0.598900 (0.022870) 0.177124 0.600000 --->plink-------germline2: 3.94e-18 -0.423324 2.99e-87 -0.424736 0.174164 (0.059372) 0.598900 (0.022870) 0.177124 0.600000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.174164 (0.059372) 0.000000 (0.000000) 0.177124 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.598900 (0.022870) 0.598900 (0.022870) 0.600000 0.600000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.598900 (0.022870) 0.000000 (0.000000) 0.600000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.598900 (0.022870) 0.000000 (0.000000) 0.600000 0.000000 ######specifitySample###### --->fabia-------beagle1--: 3.94e-18 0.048876 1.48e-79 0.049294 0.163116 (0.002083) 0.113822 (0.008676) 0.163158 0.113333 --->fabia-------beagle2--: 3.9e-18 0.030971 5.2e-88 0.031005 0.163116 (0.002083) 0.132111 (0.005438) 0.163158 0.131111 --->fabia-------plink----: 3.93e-18 0.049266 2.67e-79 0.049227 0.163116 (0.002083) 0.113889 (0.008795) 0.163158 0.113333 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.163116 (0.002083) 0.000000 (0.000000) 0.163158 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.163116 (0.002083) 0.000000 (0.000000) 0.163158 0.000000 --->fabia-------dash-----: 3.87e-18 -0.637406 3.96e-114 -0.639084 0.163116 (0.002083) 0.802200 (0.045739) 0.163158 0.800000 --->beagle1-----beagle2--: 3.91e-18 -0.017824 1.23e-40 -0.018289 0.113822 (0.008676) 0.132111 (0.005438) 0.113333 0.131111 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.113822 (0.008676) 0.113889 (0.008795) 0.113333 0.113333 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.113822 (0.008676) 0.000000 (0.000000) 0.113333 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.113822 (0.008676) 0.000000 (0.000000) 0.113333 0.000000 --->beagle1-----dash-----: 3.93e-18 -0.688956 8.48e-115 -0.688378 0.113822 (0.008676) 0.802200 (0.045739) 0.113333 0.800000 --->beagle2-----plink----: 3.91e-18 0.017824 3.04e-43 0.018222 0.132111 (0.005438) 0.113889 (0.008795) 0.131111 0.113333 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.132111 (0.005438) 0.000000 (0.000000) 0.131111 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.132111 (0.005438) 0.000000 (0.000000) 0.131111 0.000000 --->beagle2-----dash-----: 3.6e-18 -0.668836 5.58e-113 -0.670089 0.132111 (0.005438) 0.802200 (0.045739) 0.131111 0.800000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.113889 (0.008795) 0.000000 (0.000000) 0.113333 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.113889 (0.008795) 0.000000 (0.000000) 0.113333 0.000000 --->plink-------dash-----: 3.94e-18 -0.688825 3.19e-114 -0.688311 0.113889 (0.008795) 0.802200 (0.045739) 0.113333 0.800000 --->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) 0.802200 (0.045739) 0.000000 0.800000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.802200 (0.045739) 0.000000 0.800000 ######sensitivitySample###### --->fabia-------beagle1--: 3.91e-18 0.529953 2.41e-58 0.520800 0.843200 (0.083592) 0.322400 (0.106639) 0.860000 0.300000 --->fabia-------beagle2--: 3.87e-18 0.740015 5.47e-82 0.738400 0.843200 (0.083592) 0.104800 (0.065079) 0.860000 0.100000 --->fabia-------plink----: 8.23e-07 0.059993 1.11e-06 0.043600 0.843200 (0.083592) 0.799600 (0.045303) 0.860000 0.800000 --->fabia-------germline1: 3.46e-06 0.059958 6.43e-06 0.041000 0.843200 (0.083592) 0.802200 (0.045739) 0.860000 0.800000 --->fabia-------germline2: 3.46e-06 0.059958 6.43e-06 0.041000 0.843200 (0.083592) 0.802200 (0.045739) 0.860000 0.800000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.843200 (0.083592) 0.000000 (0.000000) 0.860000 0.000000 --->beagle1-----beagle2--: 3.8e-18 0.219956 1.18e-45 0.217600 0.322400 (0.106639) 0.104800 (0.065079) 0.300000 0.100000 --->beagle1-----plink----: 3.91e-18 -0.479923 1.1e-66 -0.477200 0.322400 (0.106639) 0.799600 (0.045303) 0.300000 0.800000 --->beagle1-----germline1: 3.91e-18 -0.480092 4.26e-67 -0.479800 0.322400 (0.106639) 0.802200 (0.045739) 0.300000 0.800000 --->beagle1-----germline2: 3.91e-18 -0.480092 4.26e-67 -0.479800 0.322400 (0.106639) 0.802200 (0.045739) 0.300000 0.800000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.322400 (0.106639) 0.000000 (0.000000) 0.300000 0.000000 --->beagle2-----plink----: 3.79e-18 -0.699986 2.01e-96 -0.694800 0.104800 (0.065079) 0.799600 (0.045303) 0.100000 0.800000 --->beagle2-----germline1: 3.79e-18 -0.699941 1.4e-96 -0.697400 0.104800 (0.065079) 0.802200 (0.045739) 0.100000 0.800000 --->beagle2-----germline2: 3.79e-18 -0.699941 1.4e-96 -0.697400 0.104800 (0.065079) 0.802200 (0.045739) 0.100000 0.800000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.104800 (0.065079) 0.000000 (0.000000) 0.100000 0.000000 --->plink-------germline1: 1e+00 0.000000 1.32e-03 -0.002600 0.799600 (0.045303) 0.802200 (0.045739) 0.800000 0.800000 --->plink-------germline2: 1e+00 0.000000 1.32e-03 -0.002600 0.799600 (0.045303) 0.802200 (0.045739) 0.800000 0.800000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.799600 (0.045303) 0.000000 (0.000000) 0.800000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.802200 (0.045739) 0.802200 (0.045739) 0.800000 0.800000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.802200 (0.045739) 0.000000 (0.000000) 0.800000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.802200 (0.045739) 0.000000 (0.000000) 0.800000 0.000000 ######trueNSample###### --->fabia-------beagle1--: 3.7e-18 104 9.72e-145 104 155 ( 1.98) 51.2 ( 3.9) 155 51 --->fabia-------beagle2--: 2.82e-18 95.5 6.97e-174 95.5 155 ( 1.98) 59.5 ( 2.45) 155 59 --->fabia-------plink----: 3.65e-18 104 5.15e-145 104 155 ( 1.98) 51.2 ( 3.96) 155 51 --->fabia-------germline1: 1e+00 0 1e+00 0 155 ( 1.98) 0 ( 0) 155 0 --->fabia-------germline2: 1e+00 0 1e+00 0 155 ( 1.98) 0 ( 0) 155 0 --->fabia-------dash-----: 2.61e-18 95 4.51e-177 95.1 155 ( 1.98) 59.9 ( 2.29) 155 60 --->beagle1-----beagle2--: 3.65e-18 -8 1.23e-40 -8.23 51.2 ( 3.9) 59.5 ( 2.45) 51 59 --->beagle1-----plink----: 1e+00 0 9.48e-01 -0.03 51.2 ( 3.9) 51.2 ( 3.96) 51 51 --->beagle1-----germline1: 1e+00 0 1e+00 0 51.2 ( 3.9) 0 ( 0) 51 0 --->beagle1-----germline2: 1e+00 0 1e+00 0 51.2 ( 3.9) 0 ( 0) 51 0 --->beagle1-----dash-----: 3.64e-18 -8.5 1.62e-43 -8.67 51.2 ( 3.9) 59.9 ( 2.29) 51 60 --->beagle2-----plink----: 3.66e-18 8 3.04e-43 8.2 59.5 ( 2.45) 51.2 ( 3.96) 59 51 --->beagle2-----germline1: 1e+00 0 1e+00 0 59.5 ( 2.45) 0 ( 0) 59 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 59.5 ( 2.45) 0 ( 0) 59 0 --->beagle2-----dash-----: 5.11e-06 -1.5 3.77e-07 -0.44 59.5 ( 2.45) 59.9 ( 2.29) 59 60 --->plink-------germline1: 1e+00 0 1e+00 0 51.2 ( 3.96) 0 ( 0) 51 0 --->plink-------germline2: 1e+00 0 1e+00 0 51.2 ( 3.96) 0 ( 0) 51 0 --->plink-------dash-----: 3.62e-18 -8.5 5.3e-45 -8.64 51.2 ( 3.96) 59.9 ( 2.29) 51 60 --->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) 59.9 ( 2.29) 0 60 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 59.9 ( 2.29) 0 60 ######falsePSample###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 0 ( 0) 8.67 ( 3.57) 0 8 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.440000 (0.808040) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0 1e+00 0 0 ( 0) 8.64 ( 3.42) 0 8 --->fabia-------germline1: 1e+00 0 1e+00 0 0 ( 0) 59.9 ( 2.29) 0 60 --->fabia-------germline2: 1e+00 0 1e+00 0 0 ( 0) 59.9 ( 2.29) 0 60 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 (0.000000) 0.000000 (0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 3.65e-18 8 1.23e-40 8.23 8.67 ( 3.57) 0.44 ( 0.808) 8 0 --->beagle1-----plink----: 1e+00 0 9.48e-01 0.03 8.67 ( 3.57) 8.64 ( 3.42) 8 8 --->beagle1-----germline1: 3.6e-18 -51.5 7.83e-113 -51.2 8.67 ( 3.57) 59.9 ( 2.29) 8 60 --->beagle1-----germline2: 3.6e-18 -51.5 7.83e-113 -51.2 8.67 ( 3.57) 59.9 ( 2.29) 8 60 --->beagle1-----dash-----: 1e+00 0 1e+00 0 8.67 ( 3.57) 0 ( 0) 8 0 --->beagle2-----plink----: 3.66e-18 -8 3.04e-43 -8.2 0.44 ( 0.808) 8.64 ( 3.42) 0 8 --->beagle2-----germline1: 3.3e-18 -59.5 3.04e-139 -59.5 0.44 ( 0.808) 59.9 ( 2.29) 0 60 --->beagle2-----germline2: 3.3e-18 -59.5 3.04e-139 -59.5 0.44 ( 0.808) 59.9 ( 2.29) 0 60 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.440000 (0.808040) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------germline1: 3.66e-18 -51 2.82e-112 -51.2 8.64 ( 3.42) 59.9 ( 2.29) 8 60 --->plink-------germline2: 3.66e-18 -51 2.82e-112 -51.2 8.64 ( 3.42) 59.9 ( 2.29) 8 60 --->plink-------dash-----: 1e+00 0 1e+00 0 8.64 ( 3.42) 0 ( 0) 8 0 --->germline1---germline2: 1e+00 0 1e+00 0 59.9 ( 2.29) 59.9 ( 2.29) 60 60 --->germline1---dash-----: 1e+00 0 1e+00 0 59.9 ( 2.29) 0 ( 0) 60 0 --->germline2---dash-----: 1e+00 0 1e+00 0 59.9 ( 2.29) 0 ( 0) 60 0 ######falseNSample###### --->fabia-------beagle1--: 3.87e-18 -21.5 1.76e-50 -21.1 2.88 ( 3.98) 24 ( 5.41) 0 24 --->fabia-------beagle2--: 3.82e-18 -32 5.89e-75 -32 2.88 ( 3.98) 34.9 ( 3.89) 0 36 --->fabia-------plink----: 1e+00 0.000000 2.19e-10 2.750000 2.880000 (3.977919) 0.130000 (0.393251) 0.000000 0.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 2.880000 (3.977919) 0.000000 (0.000000) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 2.880000 (3.977919) 0.000000 (0.000000) 0.000000 0.000000 --->fabia-------dash-----: 3.69e-18 -37.5 7.81e-95 -37.2 2.88 ( 3.98) 40.1 ( 2.29) 0 40 --->beagle1-----beagle2--: 3.69e-18 -11 1.18e-45 -10.9 24 ( 5.41) 34.9 ( 3.89) 24 36 --->beagle1-----plink----: 3.82e-18 24 1.1e-66 23.9 24 ( 5.41) 0.13 ( 0.393) 24 0 --->beagle1-----germline1: 1e+00 0 1e+00 0 24 ( 5.41) 0 ( 0) 24 0 --->beagle1-----germline2: 1e+00 0 1e+00 0 24 ( 5.41) 0 ( 0) 24 0 --->beagle1-----dash-----: 3.77e-18 -16 8.53e-52 -16.1 24 ( 5.41) 40.1 ( 2.29) 24 40 --->beagle2-----plink----: 3.62e-18 35 2.01e-96 34.7 34.9 ( 3.89) 0.13 ( 0.393) 36 0 --->beagle2-----germline1: 1e+00 0 1e+00 0 34.9 ( 3.89) 0 ( 0) 36 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 34.9 ( 3.89) 0 ( 0) 36 0 --->beagle2-----dash-----: 1.52e-17 -5 2.08e-29 -5.24 34.9 ( 3.89) 40.1 ( 2.29) 36 40 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.130000 (0.393251) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.130000 (0.393251) 0.000000 (0.000000) 0.000000 0.000000 --->plink-------dash-----: 3.05e-18 -40 1.55e-125 -40 0.13 ( 0.393) 40.1 ( 2.29) 0 40 --->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) 40.1 ( 2.29) 0 40 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 40.1 ( 2.29) 0 40 ######truePSample###### --->fabia-------beagle1--: 3.87e-18 26.5 2.41e-58 26 42.2 ( 4.18) 16.1 ( 5.33) 43 15 --->fabia-------beagle2--: 3.79e-18 37 5.47e-82 36.9 42.2 ( 4.18) 5.24 ( 3.25) 43 5 --->fabia-------plink----: 7.39e-07 3 1.11e-06 2.18 42.2 ( 4.18) 40 ( 2.27) 43 40 --->fabia-------germline1: 3.65e-06 3 6.43e-06 2.05 42.2 ( 4.18) 40.1 ( 2.29) 43 40 --->fabia-------germline2: 3.65e-06 3 6.43e-06 2.05 42.2 ( 4.18) 40.1 ( 2.29) 43 40 --->fabia-------dash-----: 3.92e-18 -637 1.48e-169 -637 42.2 ( 4.18) 680 ( 12.2) 43 678 --->beagle1-----beagle2--: 3.69e-18 11 1.18e-45 10.9 16.1 ( 5.33) 5.24 ( 3.25) 15 5 --->beagle1-----plink----: 3.82e-18 -24 1.1e-66 -23.9 16.1 ( 5.33) 40 ( 2.27) 15 40 --->beagle1-----germline1: 3.82e-18 -24 4.26e-67 -24 16.1 ( 5.33) 40.1 ( 2.29) 15 40 --->beagle1-----germline2: 3.82e-18 -24 4.26e-67 -24 16.1 ( 5.33) 40.1 ( 2.29) 15 40 --->beagle1-----dash-----: 3.92e-18 -663 6.42e-169 -663 16.1 ( 5.33) 680 ( 12.2) 15 678 --->beagle2-----plink----: 3.62e-18 -35 2.01e-96 -34.7 5.24 ( 3.25) 40 ( 2.27) 5 40 --->beagle2-----germline1: 3.57e-18 -35 1.4e-96 -34.9 5.24 ( 3.25) 40.1 ( 2.29) 5 40 --->beagle2-----germline2: 3.57e-18 -35 1.4e-96 -34.9 5.24 ( 3.25) 40.1 ( 2.29) 5 40 --->beagle2-----dash-----: 3.91e-18 -674 1.42e-172 -674 5.24 ( 3.25) 680 ( 12.2) 5 678 --->plink-------germline1: 1e+00 0 1.32e-03 -0.13 40 ( 2.27) 40.1 ( 2.29) 40 40 --->plink-------germline2: 1e+00 0 1.32e-03 -0.13 40 ( 2.27) 40.1 ( 2.29) 40 40 --->plink-------dash-----: 3.91e-18 -640 2.35e-172 -640 40 ( 2.27) 680 ( 12.2) 40 678 --->germline1---germline2: 1e+00 0 1e+00 0 40.1 ( 2.29) 40.1 ( 2.29) 40 40 --->germline1---dash-----: 3.92e-18 -640 2.69e-172 -639 40.1 ( 2.29) 680 ( 12.2) 40 678 --->germline2---dash-----: 3.92e-18 -640 2.69e-172 -639 40.1 ( 2.29) 680 ( 12.2) 40 678