Results: Wilcoxon-Rank-Sum Wilcoxon-median t-test t-test-mean mean1 (std) mean2 (std) median1 median2 ######Matthews###### --->fabia-------beagle1--: 5.87e-15 0.294315 3.02e-24 0.290718 0.296124 ( 0.216555) 0.005406 ( 0.015313) 0.322754 0.000270 --->fabia-------beagle2--: 6.03e-16 0.302184 1.61e-24 0.296531 0.296124 ( 0.216555) -0.000407 ( 0.006522) 0.322754 -0.003586 --->fabia-------plink----: 1.58e-13 0.297077 3.85e-24 0.291787 0.296124 ( 0.216555) 0.004337 ( 0.000951) 0.322754 0.004430 --->fabia-------germline1: 1.19e-14 0.295603 2.91e-24 0.291402 0.296124 ( 0.216555) 0.004722 ( 0.007709) 0.322754 0.006220 --->fabia-------germline2: 8.7e-16 0.300929 1.24e-24 0.295158 0.296124 ( 0.216555) 0.000966 ( 0.007234) 0.322754 5.25e-05 --->fabia-------dash-----: 1.07e-17 0.304719 6.92e-25 0.298153 0.296124 ( 0.216555) -0.002030 ( 0.005256) 0.322754 -0.004217 --->beagle1-----beagle2--: 1.21e-03 0.003765 7.94e-06 0.005813 0.005406 ( 0.015313) -0.000407 ( 0.006522) 0.000270 -0.003586 --->beagle1-----plink----: 4.16e-02 -0.002123 4.83e-01 0.001069 0.005406 ( 0.015313) 0.004337 ( 0.000951) 0.000270 0.004430 --->beagle1-----germline1: 2.26e-01 -0.001403 6.44e-01 0.000684 0.005406 ( 0.015313) 0.004722 ( 0.007709) 0.000270 0.006220 --->beagle1-----germline2: 2.21e-02 0.002575 2.26e-03 0.004440 0.005406 ( 0.015313) 0.000966 ( 0.007234) 0.000270 5.25e-05 --->beagle1-----dash-----: 2.4e-05 0.004177 2.41e-05 0.007436 0.005406 ( 0.015313) -0.002030 ( 0.005256) 0.000270 -0.004217 --->beagle2-----plink----: 2e-09 -0.006341 9.18e-11 -0.004744 -0.000407 ( 0.006522) 0.004337 ( 0.000951) -0.003586 0.004430 --->beagle2-----germline1: 5.31e-07 -0.005685 4.96e-07 -0.005129 -0.000407 ( 0.006522) 0.004722 ( 0.007709) -0.003586 0.006220 --->beagle2-----germline2: 8.47e-02 -0.001482 1.36e-01 -0.001373 -0.000407 ( 0.006522) 0.000966 ( 0.007234) -0.003586 5.25e-05 --->beagle2-----dash-----: 4.37e-02 0.001199 6.32e-02 0.001623 -0.000407 ( 0.006522) -0.002030 ( 0.005256) -0.003586 -0.004217 --->plink-------germline1: 3.35e-01 -0.000890 6.09e-01 -0.000385 0.004337 ( 0.000951) 0.004722 ( 0.007709) 0.004430 0.006220 --->plink-------germline2: 1.1e-05 0.003724 6.27e-06 0.003371 0.004337 ( 0.000951) 0.000966 ( 0.007234) 0.004430 5.25e-05 --->plink-------dash-----: 1.89e-13 0.007479 7.82e-21 0.006367 0.004337 ( 0.000951) -0.002030 ( 0.005256) 0.004430 -0.004217 --->germline1---germline2: 1.63e-06 0.003509 1.84e-07 0.003756 0.004722 ( 0.007709) 0.000966 ( 0.007234) 0.006220 5.25e-05 --->germline1---dash-----: 1.07e-09 0.006806 7.88e-12 0.006752 0.004722 ( 0.007709) -0.002030 ( 0.005256) 0.006220 -0.004217 --->germline2---dash-----: 4.44e-04 0.002343 3.47e-05 0.002996 0.000966 ( 0.007234) -0.002030 ( 0.005256) 5.25e-05 -0.004217 ######F1###### --->fabia-------beagle1--: 5.39e-14 0.237069 8.68e-21 0.231369 0.232613 ( 0.194949) 0.001244 ( 0.001859) 0.212377 0.000591 --->fabia-------beagle2--: 1.8e-14 0.267935 8.31e-21 0.232058 0.232613 ( 0.194949) 0.000554 ( 0.001076) 0.212377 0.000000 --->fabia-------plink----: 1.58e-13 0.224036 8.38e-21 0.231964 0.232613 ( 0.194949) 0.000648 ( 9.63e-05) 0.212377 0.000634 --->fabia-------germline1: 1.58e-13 0.223683 8.49e-21 0.231845 0.232613 ( 0.194949) 0.000767 ( 0.000321) 0.212377 0.000782 --->fabia-------germline2: 8.02e-14 0.229707 8.13e-21 0.231940 0.232613 ( 0.194949) 0.000673 ( 0.000513) 0.212377 0.000573 --->fabia-------dash-----: 1.8e-14 0.268407 7.51e-21 0.232245 0.232613 ( 0.194949) 0.000367 ( 0.000554) 0.212377 8.61e-05 --->beagle1-----beagle2--: 2.32e-06 0.000682 5.01e-06 0.000690 0.001244 ( 0.001859) 0.000554 ( 0.001076) 0.000591 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1.45e-03 0.000596 0.001244 ( 0.001859) 0.000648 ( 9.63e-05) 0.000591 0.000634 --->beagle1-----germline1: 3.37e-01 0.000108 7.4e-03 0.000476 0.001244 ( 0.001859) 0.000767 ( 0.000321) 0.000591 0.000782 --->beagle1-----germline2: 1e+00 0.000000 9.59e-04 0.000571 0.001244 ( 0.001859) 0.000673 ( 0.000513) 0.000591 0.000573 --->beagle1-----dash-----: 2.4e-05 0.000631 2.4e-05 0.000877 0.001244 ( 0.001859) 0.000367 ( 0.000554) 0.000591 8.61e-05 --->beagle2-----plink----: 4.93e-04 -0.000357 1e+00 0.000000 0.000554 ( 0.001076) 0.000648 ( 9.63e-05) 0.000000 0.000634 --->beagle2-----germline1: 8.31e-05 -0.000414 4.66e-02 -0.000213 0.000554 ( 0.001076) 0.000767 ( 0.000321) 0.000000 0.000782 --->beagle2-----germline2: 1.12e-02 -3e-04 2.84e-01 -0.000119 0.000554 ( 0.001076) 0.000673 ( 0.000513) 0.000000 0.000573 --->beagle2-----dash-----: 1e+00 0.000000 1.34e-01 0.000187 0.000554 ( 0.001076) 0.000367 ( 0.000554) 0.000000 8.61e-05 --->plink-------germline1: 1.53e-05 -0.000129 9.3e-06 -0.000119 0.000648 ( 9.63e-05) 0.000767 ( 0.000321) 0.000634 0.000782 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000648 ( 9.63e-05) 0.000673 ( 0.000513) 0.000634 0.000573 --->plink-------dash-----: 1.55e-06 0.000399 1.7e-06 0.000281 0.000648 ( 9.63e-05) 0.000367 ( 0.000554) 0.000634 8.61e-05 --->germline1---germline2: 7.21e-03 8.63e-05 1e+00 0.000000 0.000767 ( 0.000321) 0.000673 ( 0.000513) 0.000782 0.000573 --->germline1---dash-----: 2.57e-09 0.000448 4.29e-10 4e-04 0.000767 ( 0.000321) 0.000367 ( 0.000554) 0.000782 8.61e-05 --->germline2---dash-----: 8.05e-07 0.000364 2.69e-07 0.000306 0.000673 ( 0.000513) 0.000367 ( 0.000554) 0.000573 8.61e-05 ######accuracy###### --->fabia-------beagle1--: 3.96e-18 0.091092 2.92e-120 0.091080 0.999249 ( 0.000410) 0.908169 ( 0.005782) 0.999281 0.907884 --->fabia-------beagle2--: 3.96e-18 0.047235 1.23e-108 0.047240 0.999249 ( 0.000410) 0.952009 ( 0.003940) 0.999281 0.952025 --->fabia-------plink----: 3.96e-18 0.936601 1.08e-214 0.936545 0.999249 ( 0.000410) 0.062704 ( 0.006658) 0.999281 0.062875 --->fabia-------germline1: 3.96e-18 0.539998 6.4e-125 0.539793 0.999249 ( 0.000410) 0.459456 ( 0.031094) 0.999281 0.460334 --->fabia-------germline2: 3.96e-18 0.243561 1.71e-86 0.243242 0.999249 ( 0.000410) 0.756007 ( 0.034528) 0.999281 0.754991 --->fabia-------dash-----: 3.96e-18 0.096434 2.26e-56 0.097184 0.999249 ( 0.000410) 0.902065 ( 0.028678) 0.999281 0.898939 --->beagle1-----beagle2--: 3.96e-18 -0.043770 2.64e-108 -0.043840 0.908169 ( 0.005782) 0.952009 ( 0.003940) 0.907884 0.952025 --->beagle1-----plink----: 3.96e-18 0.845008 8.2e-201 0.845465 0.908169 ( 0.005782) 0.062704 ( 0.006658) 0.907884 0.062875 --->beagle1-----germline1: 3.96e-18 0.449433 8.95e-118 0.448713 0.908169 ( 0.005782) 0.459456 ( 0.031094) 0.907884 0.460334 --->beagle1-----germline2: 3.96e-18 0.152907 2.67e-67 0.152163 0.908169 ( 0.005782) 0.756007 ( 0.034528) 0.907884 0.754991 --->beagle1-----dash-----: 5.19e-02 0.005979 3.48e-02 0.006104 0.908169 ( 0.005782) 0.902065 ( 0.028678) 0.907884 0.898939 --->beagle2-----plink----: 3.96e-18 0.889061 4.21e-208 0.889305 0.952009 ( 0.003940) 0.062704 ( 0.006658) 0.952025 0.062875 --->beagle2-----germline1: 3.96e-18 0.493125 3.3e-121 0.492553 0.952009 ( 0.003940) 0.459456 ( 0.031094) 0.952025 0.460334 --->beagle2-----germline2: 3.96e-18 0.196407 2.89e-77 0.196002 0.952009 ( 0.003940) 0.756007 ( 0.034528) 0.952025 0.754991 --->beagle2-----dash-----: 5.35e-18 0.049645 1.04e-31 0.049944 0.952009 ( 0.003940) 0.902065 ( 0.028678) 0.952025 0.898939 --->plink-------germline1: 3.96e-18 -0.396649 1.05e-111 -0.396752 0.062704 ( 0.006658) 0.459456 ( 0.031094) 0.062875 0.460334 --->plink-------germline2: 3.96e-18 -0.693320 2.2e-130 -0.693303 0.062704 ( 0.006658) 0.756007 ( 0.034528) 0.062875 0.754991 --->plink-------dash-----: 3.96e-18 -0.840337 1.09e-145 -0.839361 0.062704 ( 0.006658) 0.902065 ( 0.028678) 0.062875 0.898939 --->germline1---germline2: 3.96e-18 -0.296174 5.4e-135 -0.296551 0.459456 ( 0.031094) 0.756007 ( 0.034528) 0.460334 0.754991 --->germline1---dash-----: 3.96e-18 -0.443385 6.5e-135 -0.442609 0.459456 ( 0.031094) 0.902065 ( 0.028678) 0.460334 0.898939 --->germline2---dash-----: 3.96e-18 -0.146170 6.72e-110 -0.146058 0.756007 ( 0.034528) 0.902065 ( 0.028678) 0.754991 0.898939 ######FPR###### --->fabia-------beagle1--: 3.96e-18 -0.090928 3.18e-120 -0.090916 0.000695 ( 0.000406) 0.091611 ( 0.005779) 0.000706 0.091914 --->fabia-------beagle2--: 3.96e-18 -0.047023 1.45e-108 -0.047019 0.000695 ( 0.000406) 0.047714 ( 0.003939) 0.000706 0.047694 --->fabia-------plink----: 3.96e-18 -0.936993 1.29e-214 -0.936886 0.000695 ( 0.000406) 0.937581 ( 0.006665) 0.000706 0.937425 --->fabia-------germline1: 3.96e-18 -0.540104 6.88e-125 -0.539917 0.000695 ( 0.000406) 0.540612 ( 0.031124) 0.000706 0.539651 --->fabia-------germline2: 3.96e-18 -0.243480 1.91e-86 -0.243152 0.000695 ( 0.000406) 0.243846 ( 0.034558) 0.000706 0.244837 --->fabia-------dash-----: 3.96e-18 -0.096267 2.91e-56 -0.096985 0.000695 ( 0.000406) 0.097680 ( 0.028702) 0.000706 0.100854 --->beagle1-----beagle2--: 3.96e-18 0.043779 2.25e-108 0.043897 0.091611 ( 0.005779) 0.047714 ( 0.003939) 0.091914 0.047694 --->beagle1-----plink----: 3.96e-18 -0.845509 7.66e-201 -0.845970 0.091611 ( 0.005779) 0.937581 ( 0.006665) 0.091914 0.937425 --->beagle1-----germline1: 3.96e-18 -0.449725 9.47e-118 -0.449001 0.091611 ( 0.005779) 0.540612 ( 0.031124) 0.091914 0.539651 --->beagle1-----germline2: 3.96e-18 -0.152997 2.83e-67 -0.152235 0.091611 ( 0.005779) 0.243846 ( 0.034558) 0.091914 0.244837 --->beagle1-----dash-----: 5.48e-02 -0.005904 3.6e-02 -0.006069 0.091611 ( 0.005779) 0.097680 ( 0.028702) 0.091914 0.100854 --->beagle2-----plink----: 3.96e-18 -0.889594 4.36e-208 -0.889867 0.047714 ( 0.003939) 0.937581 ( 0.006665) 0.047694 0.937425 --->beagle2-----germline1: 3.96e-18 -0.493500 3.46e-121 -0.492898 0.047714 ( 0.003939) 0.540612 ( 0.031124) 0.047694 0.539651 --->beagle2-----germline2: 3.96e-18 -0.196567 2.98e-77 -0.196132 0.047714 ( 0.003939) 0.243846 ( 0.034558) 0.047694 0.244837 --->beagle2-----dash-----: 5.35e-18 -0.049662 1.08e-31 -0.049966 0.047714 ( 0.003939) 0.097680 ( 0.028702) 0.047694 0.100854 --->plink-------germline1: 3.96e-18 0.396825 1.09e-111 0.396968 0.937581 ( 0.006665) 0.540612 ( 0.031124) 0.937425 0.539651 --->plink-------germline2: 3.96e-18 0.693828 2.24e-130 0.693734 0.937581 ( 0.006665) 0.243846 ( 0.034558) 0.937425 0.244837 --->plink-------dash-----: 3.96e-18 0.840894 1.11e-145 0.839900 0.937581 ( 0.006665) 0.097680 ( 0.028702) 0.937425 0.100854 --->germline1---germline2: 3.96e-18 0.296393 5.52e-135 0.296766 0.540612 ( 0.031124) 0.243846 ( 0.034558) 0.539651 0.244837 --->germline1---dash-----: 3.96e-18 0.443738 6.72e-135 0.442932 0.540612 ( 0.031124) 0.097680 ( 0.028702) 0.539651 0.100854 --->germline2---dash-----: 3.96e-18 0.146280 6.99e-110 0.146166 0.243846 ( 0.034558) 0.097680 ( 0.028702) 0.244837 0.100854 ######FDR###### --->fabia-------beagle1--: 2.88e-14 -0.149460 7.22e-16 -0.161775 0.837601 ( 0.168289) 0.999376 ( 0.000933) 0.875816 0.999704 --->fabia-------beagle2--: 1.23e-14 -0.172242 6.87e-16 -0.162120 0.837601 ( 0.168289) 0.999721 ( 0.000542) 0.875816 1.000000 --->fabia-------plink----: 7.83e-14 -0.139234 6.97e-16 -0.162075 0.837601 ( 0.168289) 0.999676 ( 4.82e-05) 0.875816 0.999683 --->fabia-------germline1: 7.83e-14 -0.139286 7.06e-16 -0.162015 0.837601 ( 0.168289) 0.999616 ( 0.000160) 0.875816 0.999609 --->fabia-------germline2: 5.07e-14 -0.145182 6.92e-16 -0.162062 0.837601 ( 0.168289) 0.999663 ( 0.000257) 0.875816 0.999713 --->fabia-------dash-----: 1.2e-14 -0.169470 6.6e-16 -0.162215 0.837601 ( 0.168289) 0.999816 ( 0.000278) 0.875816 0.999957 --->beagle1-----beagle2--: 2.51e-06 -0.000341 5.27e-06 -0.000345 0.999376 ( 0.000933) 0.999721 ( 0.000542) 0.999704 1.000000 --->beagle1-----plink----: 1e+00 0.000000 1.4e-03 -3e-04 0.999376 ( 0.000933) 0.999676 ( 4.82e-05) 0.999704 0.999683 --->beagle1-----germline1: 1e+00 0.000000 7.15e-03 -0.000240 0.999376 ( 0.000933) 0.999616 ( 0.000160) 0.999704 0.999609 --->beagle1-----germline2: 1e+00 0.000000 9.35e-04 -0.000287 0.999376 ( 0.000933) 0.999663 ( 0.000257) 0.999704 0.999713 --->beagle1-----dash-----: 2.44e-05 -0.000323 2.4e-05 -0.000440 0.999376 ( 0.000933) 0.999816 ( 0.000278) 0.999704 0.999957 --->beagle2-----plink----: 6.04e-04 0.000173 1e+00 0.000000 0.999721 ( 0.000542) 0.999676 ( 4.82e-05) 1.000000 0.999683 --->beagle2-----germline1: 8.68e-05 0.000203 5.18e-02 0.000105 0.999721 ( 0.000542) 0.999616 ( 0.000160) 1.000000 0.999609 --->beagle2-----germline2: 1.23e-02 0.000126 1e+00 0.000000 0.999721 ( 0.000542) 0.999663 ( 0.000257) 1.000000 0.999713 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.999721 ( 0.000542) 0.999816 ( 0.000278) 1.000000 0.999957 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.999676 ( 4.82e-05) 0.999616 ( 0.000160) 0.999683 0.999609 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.999676 ( 4.82e-05) 0.999663 ( 0.000257) 0.999683 0.999713 --->plink-------dash-----: 1.57e-06 -0.000175 1.96e-06 -0.000140 0.999676 ( 4.82e-05) 0.999816 ( 0.000278) 0.999683 0.999957 --->germline1---germline2: 7.36e-03 -6.73e-05 1e+00 0.000000 0.999616 ( 0.000160) 0.999663 ( 0.000257) 0.999609 0.999713 --->germline1---dash-----: 2.8e-09 -0.000232 5e-10 -2e-04 0.999616 ( 0.000160) 0.999816 ( 0.000278) 0.999609 0.999957 --->germline2---dash-----: 8.4e-07 -0.000168 2.92e-07 -0.000153 0.999663 ( 0.000257) 0.999816 ( 0.000278) 0.999713 0.999957 ######specifity###### --->fabia-------beagle1--: 3.96e-18 0.090925 3.18e-120 0.090916 0.999305 ( 0.000406) 0.908389 ( 0.005779) 0.999294 0.908086 --->fabia-------beagle2--: 3.96e-18 0.047019 1.45e-108 0.047019 0.999305 ( 0.000406) 0.952286 ( 0.003939) 0.999294 0.952306 --->fabia-------plink----: 3.96e-18 0.936994 1.29e-214 0.936886 0.999305 ( 0.000406) 0.062419 ( 0.006665) 0.999294 0.062575 --->fabia-------germline1: 3.96e-18 0.540102 6.88e-125 0.539917 0.999305 ( 0.000406) 0.459388 ( 0.031124) 0.999294 0.460349 --->fabia-------germline2: 3.96e-18 0.243471 1.91e-86 0.243152 0.999305 ( 0.000406) 0.756154 ( 0.034558) 0.999294 0.755163 --->fabia-------dash-----: 3.96e-18 0.096252 2.91e-56 0.096985 0.999305 ( 0.000406) 0.902320 ( 0.028702) 0.999294 0.899146 --->beagle1-----beagle2--: 3.96e-18 -0.043825 2.25e-108 -0.043897 0.908389 ( 0.005779) 0.952286 ( 0.003939) 0.908086 0.952306 --->beagle1-----plink----: 3.96e-18 0.845502 7.65e-201 0.845970 0.908389 ( 0.005779) 0.062419 ( 0.006665) 0.908086 0.062575 --->beagle1-----germline1: 3.96e-18 0.449723 9.47e-118 0.449001 0.908389 ( 0.005779) 0.459388 ( 0.031124) 0.908086 0.460349 --->beagle1-----germline2: 3.96e-18 0.152979 2.83e-67 0.152235 0.908389 ( 0.005779) 0.756154 ( 0.034558) 0.908086 0.755163 --->beagle1-----dash-----: 5.48e-02 0.005888 3.6e-02 0.006069 0.908389 ( 0.005779) 0.902320 ( 0.028702) 0.908086 0.899146 --->beagle2-----plink----: 3.96e-18 0.889596 4.35e-208 0.889867 0.952286 ( 0.003939) 0.062419 ( 0.006665) 0.952306 0.062575 --->beagle2-----germline1: 3.96e-18 0.493497 3.46e-121 0.492898 0.952286 ( 0.003939) 0.459388 ( 0.031124) 0.952306 0.460349 --->beagle2-----germline2: 3.96e-18 0.196556 2.98e-77 0.196132 0.952286 ( 0.003939) 0.756154 ( 0.034558) 0.952306 0.755163 --->beagle2-----dash-----: 5.35e-18 0.049670 1.08e-31 0.049966 0.952286 ( 0.003939) 0.902320 ( 0.028702) 0.952306 0.899146 --->plink-------germline1: 3.96e-18 -0.396864 1.09e-111 -0.396968 0.062419 ( 0.006665) 0.459388 ( 0.031124) 0.062575 0.460349 --->plink-------germline2: 3.96e-18 -0.693768 2.24e-130 -0.693734 0.062419 ( 0.006665) 0.756154 ( 0.034558) 0.062575 0.755163 --->plink-------dash-----: 3.96e-18 -0.840892 1.11e-145 -0.839900 0.062419 ( 0.006665) 0.902320 ( 0.028702) 0.062575 0.899146 --->germline1---germline2: 3.96e-18 -0.296398 5.52e-135 -0.296766 0.459388 ( 0.031124) 0.756154 ( 0.034558) 0.460349 0.755163 --->germline1---dash-----: 3.96e-18 -0.443737 6.72e-135 -0.442932 0.459388 ( 0.031124) 0.902320 ( 0.028702) 0.460349 0.899146 --->germline2---dash-----: 3.96e-18 -0.146279 6.99e-110 -0.146166 0.756154 ( 0.034558) 0.902320 ( 0.028702) 0.755163 0.899146 ######sensitivity###### --->fabia-------beagle1--: 2.82e-11 0.456072 1.1e-15 0.447334 0.622651 ( 0.405885) 0.175317 ( 0.235917) 0.820968 0.100000 --->fabia-------beagle2--: 2.37e-14 0.784028 4.17e-25 0.580824 0.622651 ( 0.405885) 0.041827 ( 0.077369) 0.820968 0.000000 --->fabia-------plink----: 1.32e-17 -0.409588 4.95e-15 -0.375362 0.622651 ( 0.405885) 0.998013 ( 0.010550) 0.820968 1.000000 --->fabia-------germline1: 7.14e-01 -0.018650 3.07e-01 -0.044742 0.622651 ( 0.405885) 0.667393 ( 0.223466) 0.820968 0.713494 --->fabia-------germline2: 5.94e-11 0.387482 3.71e-13 0.358060 0.622651 ( 0.405885) 0.264591 ( 0.183215) 0.820968 0.239930 --->fabia-------dash-----: 2.92e-14 0.748359 5.72e-25 0.556465 0.622651 ( 0.405885) 0.066186 ( 0.105946) 0.820968 0.012143 --->beagle1-----beagle2--: 5.06e-11 0.200012 8.63e-10 0.133490 0.175317 ( 0.235917) 0.041827 ( 0.077369) 0.100000 0.000000 --->beagle1-----plink----: 7.12e-18 -0.874177 1.72e-57 -0.822696 0.175317 ( 0.235917) 0.998013 ( 0.010550) 0.100000 1.000000 --->beagle1-----germline1: 5.69e-17 -0.521725 4.09e-32 -0.492076 0.175317 ( 0.235917) 0.667393 ( 0.223466) 0.100000 0.713494 --->beagle1-----germline2: 1.94e-04 -0.103800 5.14e-04 -0.089274 0.175317 ( 0.235917) 0.264591 ( 0.183215) 0.100000 0.239930 --->beagle1-----dash-----: 7.17e-05 0.099178 9.69e-05 0.109131 0.175317 ( 0.235917) 0.066186 ( 0.105946) 0.100000 0.012143 --->beagle2-----plink----: 8.4e-19 -0.973710 5.59e-110 -0.956186 0.041827 ( 0.077369) 0.998013 ( 0.010550) 0.000000 1.000000 --->beagle2-----germline1: 4.33e-18 -0.640993 1.12e-47 -0.625566 0.041827 ( 0.077369) 0.667393 ( 0.223466) 0.000000 0.713494 --->beagle2-----germline2: 3.82e-15 -0.233129 3.91e-20 -0.222764 0.041827 ( 0.077369) 0.264591 ( 0.183215) 0.000000 0.239930 --->beagle2-----dash-----: 9.35e-02 -0.029293 7.23e-02 -0.024359 0.041827 ( 0.077369) 0.066186 ( 0.105946) 0.000000 0.012143 --->plink-------germline1: 5.78e-18 0.315988 6.87e-27 0.330620 0.998013 ( 0.010550) 0.667393 ( 0.223466) 1.000000 0.713494 --->plink-------germline2: 3.92e-18 0.739215 4.02e-63 0.733422 0.998013 ( 0.010550) 0.264591 ( 0.183215) 1.000000 0.239930 --->plink-------dash-----: 1.94e-18 0.957077 1.32e-95 0.931827 0.998013 ( 0.010550) 0.066186 ( 0.105946) 1.000000 0.012143 --->germline1---germline2: 3.95e-18 0.398391 4.14e-40 0.402802 0.667393 ( 0.223466) 0.264591 ( 0.183215) 0.713494 0.239930 --->germline1---dash-----: 3.95e-18 0.606997 3.35e-47 0.601207 0.667393 ( 0.223466) 0.066186 ( 0.105946) 0.713494 0.012143 --->germline2---dash-----: 3.79e-16 0.211066 4.85e-22 0.198405 0.264591 ( 0.183215) 0.066186 ( 0.105946) 0.239930 0.012143 ######trueN###### --->fabia-------beagle1--: 3.96e-18 10902379 2.21e-226 10901927 2e+07 ( 8068) 9081125 ( 57806) 2e+07 9078100 --->fabia-------beagle2--: 3.96e-18 10462733 3.81e-241 10463091 2e+07 ( 8068) 9519961 ( 39405) 2e+07 9520166 --->fabia-------plink----: 3.96e-18 19359848 1.2e-245 19359048 2e+07 ( 8068) 624004 ( 66628) 2e+07 625545 --->fabia-------germline1: 3.96e-18 15392189 5.69e-170 15390571 2e+07 ( 8068) 4592481 ( 311178) 2e+07 4602226 --->fabia-------germline2: 3.96e-18 12426672 2.79e-156 12423817 2e+07 ( 8068) 7559234 ( 345500) 2e+07 7549323 --->fabia-------dash-----: 3.96e-18 1.1e+07 6.7e-159 1.1e+07 2e+07 ( 8068) 9020452 ( 286950) 2e+07 8988902 --->beagle1-----beagle2--: 3.96e-18 -437916 2.25e-108 -438836 9081125 ( 57806) 9519961 ( 39405) 9078100 9520166 --->beagle1-----plink----: 3.96e-18 8452541 7.5e-201 8457121 9081125 ( 57806) 624004 ( 66628) 9078100 625545 --->beagle1-----germline1: 3.96e-18 4495791 9.41e-118 4488644 9081125 ( 57806) 4592481 ( 311178) 9078100 4602226 --->beagle1-----germline2: 3.96e-18 1529462 2.83e-67 1521890 9081125 ( 57806) 7559234 ( 345500) 9078100 7549323 --->beagle1-----dash-----: 5.48e-02 59043 3.6e-02 60673 9081125 ( 57806) 9020452 ( 286950) 9078100 8988902 --->beagle2-----plink----: 3.96e-18 8893288 4.16e-208 8895957 9519961 ( 39405) 624004 ( 66628) 9520166 625545 --->beagle2-----germline1: 3.96e-18 4933127 3.43e-121 4927480 9519961 ( 39405) 4592481 ( 311178) 9520166 4602226 --->beagle2-----germline2: 3.96e-18 1964890 2.98e-77 1960727 9519961 ( 39405) 7559234 ( 345500) 9520166 7549323 --->beagle2-----dash-----: 5.35e-18 496489 1.08e-31 5e+05 9519961 ( 39405) 9020452 ( 286950) 9520166 8988902 --->plink-------germline1: 3.96e-18 -3967391 1.09e-111 -3968476 624004 ( 66628) 4592481 ( 311178) 625545 4602226 --->plink-------germline2: 3.96e-18 -6935699 2.25e-130 -6935230 624004 ( 66628) 7559234 ( 345500) 625545 7549323 --->plink-------dash-----: 3.96e-18 -8406135 1.11e-145 -8396448 624004 ( 66628) 9020452 ( 286950) 625545 8988902 --->germline1---germline2: 3.96e-18 -2963089 5.48e-135 -2966754 4592481 ( 311178) 7559234 ( 345500) 4602226 7549323 --->germline1---dash-----: 3.96e-18 -4435610 6.65e-135 -4427971 4592481 ( 311178) 9020452 ( 286950) 4602226 8988902 --->germline2---dash-----: 3.96e-18 -1462286 6.95e-110 -1461217 7559234 ( 345500) 9020452 ( 286950) 7549323 8988902 ######falseP###### --->fabia-------beagle1--: 3.96e-18 -902381 2.54e-119 -901936 13894 ( 8123) 915830 ( 57771) 14120 918888 --->fabia-------beagle2--: 3.96e-18 -462741 2.91e-107 -463100 13894 ( 8123) 476994 ( 39379) 14120 476794 --->fabia-------plink----: 3.96e-18 -9359845 2.13e-214 -9359057 13894 ( 8123) 9372951 ( 66573) 14120 9371245 --->fabia-------germline1: 3.96e-18 -5392325 6.31e-125 -5390580 13894 ( 8123) 5404474 ( 311122) 14120 5395029 --->fabia-------germline2: 3.96e-18 -2426673 2.03e-86 -2423827 13894 ( 8123) 2437721 ( 345464) 14120 2447671 --->fabia-------dash-----: 3.96e-18 -955468 4.49e-56 -962609 13894 ( 8123) 976503 ( 286929) 14120 1008258 --->beagle1-----beagle2--: 3.96e-18 437915 2.25e-108 438836 915830 ( 57771) 476994 ( 39379) 918888 476794 --->beagle1-----plink----: 3.96e-18 -8452540 7.5e-201 -8457121 915830 ( 57771) 9372951 ( 66573) 918888 9371245 --->beagle1-----germline1: 3.96e-18 -4495789 9.41e-118 -4488644 915830 ( 57771) 5404474 ( 311122) 918888 5395029 --->beagle1-----germline2: 3.96e-18 -1529468 2.83e-67 -1521890 915830 ( 57771) 2437721 ( 345464) 918888 2447671 --->beagle1-----dash-----: 5.48e-02 -59041 3.6e-02 -60673 915830 ( 57771) 976503 ( 286929) 918888 1008258 --->beagle2-----plink----: 3.96e-18 -8893287 4.16e-208 -8895957 476994 ( 39379) 9372951 ( 66573) 476794 9371245 --->beagle2-----germline1: 3.96e-18 -4933514 3.43e-121 -4927480 476994 ( 39379) 5404474 ( 311122) 476794 5395029 --->beagle2-----germline2: 3.96e-18 -1964846 2.98e-77 -1960727 476994 ( 39379) 2437721 ( 345464) 476794 2447671 --->beagle2-----dash-----: 5.35e-18 -496501 1.08e-31 -5e+05 476994 ( 39379) 976503 ( 286929) 476794 1008258 --->plink-------germline1: 3.96e-18 3967394 1.09e-111 3968476 9372951 ( 66573) 5404474 ( 311122) 9371245 5395029 --->plink-------germline2: 3.96e-18 6935597 2.25e-130 6935230 9372951 ( 66573) 2437721 ( 345464) 9371245 2447671 --->plink-------dash-----: 3.96e-18 8406136 1.11e-145 8396448 9372951 ( 66573) 976503 ( 286929) 9371245 1008258 --->germline1---germline2: 3.96e-18 2963115 5.48e-135 2966754 5404474 ( 311122) 2437721 ( 345464) 5395029 2447671 --->germline1---dash-----: 3.96e-18 4435605 6.65e-135 4427971 5404474 ( 311122) 976503 ( 286929) 5395029 1008258 --->germline2---dash-----: 3.96e-18 1462282 6.95e-110 1461217 2437721 ( 345464) 976503 ( 286929) 2447671 1008258 ######falseN###### --->fabia-------beagle1--: 2.59e-11 -1425 2.78e-15 -1350 1125 ( 1205) 2475 ( 760) 540 2604 --->fabia-------beagle2--: 2.45e-14 -2320 3.09e-24 -1788 1125 ( 1205) 2912 ( 462) 540 2925 --->fabia-------plink----: 1.49e-17 1155 4e-15 1119 1125 ( 1205) 5.51 ( 27.9) 540 0 --->fabia-------germline1: 6.74e-01 73.5 2.19e-01 163 1125 ( 1205) 962 ( 615) 540 864 --->fabia-------germline2: 4.67e-11 -1195 3.35e-13 -1085 1125 ( 1205) 2210 ( 551) 540 2146 --->fabia-------dash-----: 2.91e-14 -2228 2.94e-24 -1719 1125 ( 1205) 2844 ( 538) 540 2794 --->beagle1-----beagle2--: 5.28e-11 -607 1.54e-08 -437 2475 ( 760) 2912 ( 462) 2604 2925 --->beagle1-----plink----: 8.46e-18 2583 1.38e-54 2469 2475 ( 760) 5.51 ( 27.9) 2604 0 --->beagle1-----germline1: 4.76e-17 1556 4.41e-30 1513 2475 ( 760) 962 ( 615) 2604 864 --->beagle1-----germline2: 2.47e-04 313 1.47e-03 265 2475 ( 760) 2210 ( 551) 2604 2146 --->beagle1-----dash-----: 5.45e-05 -284 1.66e-04 -369 2475 ( 760) 2844 ( 538) 2604 2794 --->beagle2-----plink----: 3.95e-18 2902 2.29e-81 2907 2912 ( 462) 5.51 ( 27.9) 2925 0 --->beagle2-----germline1: 4.33e-18 1967 9.38e-41 1950 2912 ( 462) 962 ( 615) 2925 864 --->beagle2-----germline2: 4.65e-15 710 1.75e-18 702 2912 ( 462) 2210 ( 551) 2925 2146 --->beagle2-----dash-----: 1.02e-01 83.5 1.19e-01 68.2 2912 ( 462) 2844 ( 538) 2925 2794 --->plink-------germline1: 5.78e-18 -916 2.22e-28 -956 5.51 ( 27.9) 962 ( 615) 0 864 --->plink-------germline2: 3.95e-18 -2204 6.14e-63 -2204 5.51 ( 27.9) 2210 ( 551) 0 2146 --->plink-------dash-----: 3.95e-18 -2840 4.26e-74 -2838 5.51 ( 27.9) 2844 ( 538) 0 2794 --->germline1---germline2: 3.96e-18 -1224 4.73e-36 -1248 962 ( 615) 2210 ( 551) 864 2146 --->germline1---dash-----: 3.96e-18 -1867 1.81e-39 -1882 962 ( 615) 2844 ( 538) 864 2794 --->germline2---dash-----: 3.8e-16 -644 1.87e-19 -634 2210 ( 551) 2844 ( 538) 2146 2794 ######trueP###### --->fabia-------beagle1--: 2.34e-11 1431 2.04e-15 1360 1930 ( 1299) 570 ( 848) 2365 278 --->fabia-------beagle2--: 2.37e-14 2350 2.11e-24 1797 1930 ( 1299) 133 ( 256) 2365 0 --->fabia-------plink----: 1.58e-17 -1150 5.87e-15 -1110 1930 ( 1299) 3039 ( 454) 2365 2984 --->fabia-------germline1: 7.01e-01 -65.3 2.47e-01 -153 1930 ( 1299) 2083 ( 879) 2365 2140 --->fabia-------germline2: 4.04e-11 1205 2.32e-13 1095 1930 ( 1299) 835 ( 640) 2365 701 --->fabia-------dash-----: 2.82e-14 2258 2.03e-24 1729 1930 ( 1299) 201 ( 335) 2365 39 --->beagle1-----beagle2--: 5.28e-11 607 1.54e-08 437 570 ( 848) 133 ( 256) 278 0 --->beagle1-----plink----: 8.46e-18 -2583 1.38e-54 -2469 570 ( 848) 3039 ( 454) 278 2984 --->beagle1-----germline1: 4.76e-17 -1556 4.41e-30 -1513 570 ( 848) 2083 ( 879) 278 2140 --->beagle1-----germline2: 2.47e-04 -313 1.47e-03 -265 570 ( 848) 835 ( 640) 278 701 --->beagle1-----dash-----: 5.45e-05 284 1.66e-04 369 570 ( 848) 201 ( 335) 278 39 --->beagle2-----plink----: 3.95e-18 -2902 2.29e-81 -2907 133 ( 256) 3039 ( 454) 0 2984 --->beagle2-----germline1: 4.33e-18 -1967 9.38e-41 -1950 133 ( 256) 2083 ( 879) 0 2140 --->beagle2-----germline2: 4.65e-15 -710 1.75e-18 -702 133 ( 256) 835 ( 640) 0 701 --->beagle2-----dash-----: 1.02e-01 -83.5 1.19e-01 -68.2 133 ( 256) 201 ( 335) 0 39 --->plink-------germline1: 5.78e-18 916 2.22e-28 956 3039 ( 454) 2083 ( 879) 2984 2140 --->plink-------germline2: 3.95e-18 2204 6.14e-63 2204 3039 ( 454) 835 ( 640) 2984 701 --->plink-------dash-----: 3.95e-18 2840 4.26e-74 2838 3039 ( 454) 201 ( 335) 2984 39 --->germline1---germline2: 3.96e-18 1224 4.73e-36 1248 2083 ( 879) 835 ( 640) 2140 701 --->germline1---dash-----: 3.96e-18 1867 1.81e-39 1882 2083 ( 879) 201 ( 335) 2140 39 --->germline2---dash-----: 3.8e-16 644 1.87e-19 634 835 ( 640) 201 ( 335) 701 39 ######MatthewsSnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.147839 ( 0.101871) 0.000000 ( 0.000000) 0.169048 0.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.147839 ( 0.101871) 0.000000 ( 0.000000) 0.169048 0.000000 --->fabia-------plink----: 2.24e-15 0.163681 8.61e-26 0.145512 0.147839 ( 0.101871) 0.002327 ( 0.000725) 0.169048 0.002021 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.147839 ( 0.101871) 0.000000 ( 0.000000) 0.169048 0.000000 --->fabia-------germline2: 1.36e-15 0.165635 3.31e-26 0.147481 0.147839 ( 0.101871) 0.000358 ( 0.002518) 0.169048 0.000000 --->fabia-------dash-----: 9.56e-12 0.118432 1.41e-12 0.132080 0.147839 ( 0.101871) 0.015759 ( 0.129271) 0.169048 0.065405 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.002327 ( 0.000725) 0.000000 0.002021 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000358 ( 0.002518) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.015759 ( 0.129271) 0.000000 0.065405 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.002327 ( 0.000725) 0.000000 0.002021 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000358 ( 0.002518) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.015759 ( 0.129271) 0.000000 0.065405 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.002327 ( 0.000725) 0.000000 ( 0.000000) 0.002021 0.000000 --->plink-------germline2: 1.29e-15 0.002209 7.9e-14 0.001969 0.002327 ( 0.000725) 0.000358 ( 0.002518) 0.002021 0.000000 --->plink-------dash-----: 2.23e-04 -0.053455 3.02e-01 -0.013432 0.002327 ( 0.000725) 0.015759 ( 0.129271) 0.002021 0.065405 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000358 ( 0.002518) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.015759 ( 0.129271) 0.000000 0.065405 --->germline2---dash-----: 1.1e-04 -0.055471 2.38e-01 -0.015401 0.000358 ( 0.002518) 0.015759 ( 0.129271) 0.000000 0.065405 ######F1Snps###### --->fabia-------beagle1--: 2.45e-14 0.055032 1.08e-21 0.053686 0.112925 ( 0.046824) 0.059239 ( 0.008432) 0.112819 0.058441 --->fabia-------beagle2--: 2.45e-14 0.055032 1.08e-21 0.053686 0.112925 ( 0.046824) 0.059239 ( 0.008432) 0.112819 0.058441 --->fabia-------plink----: 2.45e-14 0.055011 1.1e-21 0.053675 0.112925 ( 0.046824) 0.059250 ( 0.008432) 0.112819 0.058447 --->fabia-------germline1: 2.45e-14 0.055032 1.08e-21 0.053686 0.112925 ( 0.046824) 0.059239 ( 0.008432) 0.112819 0.058441 --->fabia-------germline2: 2.52e-14 0.055017 1.1e-21 0.053674 0.112925 ( 0.046824) 0.059251 ( 0.008415) 0.112819 0.058441 --->fabia-------dash-----: 1.66e-13 0.053231 3.31e-19 0.052165 0.112925 ( 0.046824) 0.060760 ( 0.021729) 0.112819 0.065647 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.059239 ( 0.008432) 0.059239 ( 0.008432) 0.058441 0.058441 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.059239 ( 0.008432) 0.059250 ( 0.008432) 0.058441 0.058447 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.059239 ( 0.008432) 0.059239 ( 0.008432) 0.058441 0.058441 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.059239 ( 0.008432) 0.059251 ( 0.008415) 0.058441 0.058441 --->beagle1-----dash-----: 5.67e-04 -0.006681 4.54e-01 -0.001521 0.059239 ( 0.008432) 0.060760 ( 0.021729) 0.058441 0.065647 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.059239 ( 0.008432) 0.059250 ( 0.008432) 0.058441 0.058447 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.059239 ( 0.008432) 0.059239 ( 0.008432) 0.058441 0.058441 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.059239 ( 0.008432) 0.059251 ( 0.008415) 0.058441 0.058441 --->beagle2-----dash-----: 5.67e-04 -0.006681 4.54e-01 -0.001521 0.059239 ( 0.008432) 0.060760 ( 0.021729) 0.058441 0.065647 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.059250 ( 0.008432) 0.059239 ( 0.008432) 0.058447 0.058441 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.059250 ( 0.008432) 0.059251 ( 0.008415) 0.058447 0.058441 --->plink-------dash-----: 5.74e-04 -0.006674 4.57e-01 -0.001510 0.059250 ( 0.008432) 0.060760 ( 0.021729) 0.058447 0.065647 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.059239 ( 0.008432) 0.059251 ( 0.008415) 0.058441 0.058441 --->germline1---dash-----: 5.67e-04 -0.006681 4.54e-01 -0.001521 0.059239 ( 0.008432) 0.060760 ( 0.021729) 0.058441 0.065647 --->germline2---dash-----: 5.67e-04 -0.006711 4.57e-01 -0.001509 0.059251 ( 0.008415) 0.060760 ( 0.021729) 0.058441 0.065647 ######accuracySnps###### --->fabia-------beagle1--: 3.96e-18 0.541252 2.4e-79 0.541872 0.572415 ( 0.091404) 0.030543 ( 0.004483) 0.560350 0.030100 --->fabia-------beagle2--: 3.96e-18 0.541252 2.4e-79 0.541872 0.572415 ( 0.091404) 0.030543 ( 0.004483) 0.560350 0.030100 --->fabia-------plink----: 3.96e-18 0.541084 2.5e-79 0.541682 0.572415 ( 0.091404) 0.030733 ( 0.004473) 0.560350 0.030200 --->fabia-------germline1: 3.96e-18 0.541252 2.4e-79 0.541872 0.572415 ( 0.091404) 0.030543 ( 0.004483) 0.560350 0.030100 --->fabia-------germline2: 3.96e-18 0.541029 2.36e-79 0.541616 0.572415 ( 0.091404) 0.030799 ( 0.004473) 0.560350 0.030250 --->fabia-------dash-----: 3.96e-18 0.381849 3.36e-58 0.382013 0.572415 ( 0.091404) 0.190402 ( 0.072643) 0.560350 0.185400 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.030543 ( 0.004483) 0.030543 ( 0.004483) 0.030100 0.030100 --->beagle1-----plink----: 1e+00 0.000000 2.11e-24 -0.000190 0.030543 ( 0.004483) 0.030733 ( 0.004473) 0.030100 0.030200 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.030543 ( 0.004483) 0.030543 ( 0.004483) 0.030100 0.030100 --->beagle1-----germline2: 1e+00 0.000000 1.58e-01 -0.000256 0.030543 ( 0.004483) 0.030799 ( 0.004473) 0.030100 0.030250 --->beagle1-----dash-----: 3.94e-18 -0.156772 1.69e-39 -0.159859 0.030543 ( 0.004483) 0.190402 ( 0.072643) 0.030100 0.185400 --->beagle2-----plink----: 1e+00 0.000000 2.11e-24 -0.000190 0.030543 ( 0.004483) 0.030733 ( 0.004473) 0.030100 0.030200 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.030543 ( 0.004483) 0.030543 ( 0.004483) 0.030100 0.030100 --->beagle2-----germline2: 1e+00 0.000000 1.58e-01 -0.000256 0.030543 ( 0.004483) 0.030799 ( 0.004473) 0.030100 0.030250 --->beagle2-----dash-----: 3.94e-18 -0.156772 1.69e-39 -0.159859 0.030543 ( 0.004483) 0.190402 ( 0.072643) 0.030100 0.185400 --->plink-------germline1: 1e+00 0.000000 2.11e-24 0.000190 0.030733 ( 0.004473) 0.030543 ( 0.004483) 0.030200 0.030100 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.030733 ( 0.004473) 0.030799 ( 0.004473) 0.030200 0.030250 --->plink-------dash-----: 3.95e-18 -0.156594 1.85e-39 -0.159669 0.030733 ( 0.004473) 0.190402 ( 0.072643) 0.030200 0.185400 --->germline1---germline2: 1e+00 0.000000 1.58e-01 -0.000256 0.030543 ( 0.004483) 0.030799 ( 0.004473) 0.030100 0.030250 --->germline1---dash-----: 3.94e-18 -0.156772 1.69e-39 -0.159859 0.030543 ( 0.004483) 0.190402 ( 0.072643) 0.030100 0.185400 --->germline2---dash-----: 3.94e-18 -0.155424 1.81e-39 -0.159603 0.030799 ( 0.004473) 0.190402 ( 0.072643) 0.030250 0.185400 ######FPRSnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.436496 ( 0.093824) 1.000000 ( 0.000000) 0.442427 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.436496 ( 0.093824) 1.000000 ( 0.000000) 0.442427 1.000000 --->fabia-------plink----: 3.96e-18 -0.562423 1.12e-79 -0.563308 0.436496 ( 0.093824) 0.999804 ( 0.000143) 0.442427 0.999896 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.436496 ( 0.093824) 1.000000 ( 0.000000) 0.442427 1.000000 --->fabia-------germline2: 3.96e-18 -0.562269 1.08e-79 -0.563242 0.436496 ( 0.093824) 0.999738 ( 0.001846) 0.442427 1.000000 --->fabia-------dash-----: 3.96e-18 -0.395128 7.83e-58 -0.394358 0.436496 ( 0.093824) 0.830854 ( 0.076777) 0.442427 0.838952 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999804 ( 0.000143) 1.000000 0.999896 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999738 ( 0.001846) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.830854 ( 0.076777) 1.000000 0.838952 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999804 ( 0.000143) 1.000000 0.999896 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999738 ( 0.001846) 1.000000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.830854 ( 0.076777) 1.000000 0.838952 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.999804 ( 0.000143) 1.000000 ( 0.000000) 0.999896 1.000000 --->plink-------germline2: 1.28e-15 -0.000171 1e+00 0.000000 0.999804 ( 0.000143) 0.999738 ( 0.001846) 0.999896 1.000000 --->plink-------dash-----: 3.96e-18 0.165475 6.51e-40 0.168951 0.999804 ( 0.000143) 0.830854 ( 0.076777) 0.999896 0.838952 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999738 ( 0.001846) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.830854 ( 0.076777) 1.000000 0.838952 --->germline2---dash-----: 3.96e-18 0.165523 6.22e-40 0.168884 0.999738 ( 0.001846) 0.830854 ( 0.076777) 1.000000 0.838952 ######FDRSnps###### --->fabia-------beagle1--: 7.5e-15 -0.030472 6.54e-22 -0.030250 0.939207 ( 0.026147) 0.969457 ( 0.004483) 0.939655 0.969900 --->fabia-------beagle2--: 7.5e-15 -0.030472 6.54e-22 -0.030250 0.939207 ( 0.026147) 0.969457 ( 0.004483) 0.939655 0.969900 --->fabia-------plink----: 7.5e-15 -0.030465 6.61e-22 -0.030244 0.939207 ( 0.026147) 0.969451 ( 0.004484) 0.939655 0.969897 --->fabia-------germline1: 7.5e-15 -0.030472 6.54e-22 -0.030250 0.939207 ( 0.026147) 0.969457 ( 0.004483) 0.939655 0.969900 --->fabia-------germline2: 7.71e-15 -0.030461 6.61e-22 -0.030243 0.939207 ( 0.026147) 0.969451 ( 0.004474) 0.939655 0.969900 --->fabia-------dash-----: 6.18e-14 -0.029598 1.17e-19 -0.029276 0.939207 ( 0.026147) 0.968483 ( 0.011344) 0.939655 0.966063 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.969457 ( 0.004483) 0.969457 ( 0.004483) 0.969900 0.969900 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.969457 ( 0.004483) 0.969451 ( 0.004484) 0.969900 0.969897 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.969457 ( 0.004483) 0.969457 ( 0.004483) 0.969900 0.969900 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.969457 ( 0.004483) 0.969451 ( 0.004474) 0.969900 0.969900 --->beagle1-----dash-----: 4.22e-04 0.003579 3.56e-01 0.000974 0.969457 ( 0.004483) 0.968483 ( 0.011344) 0.969900 0.966063 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.969457 ( 0.004483) 0.969451 ( 0.004484) 0.969900 0.969897 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.969457 ( 0.004483) 0.969457 ( 0.004483) 0.969900 0.969900 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.969457 ( 0.004483) 0.969451 ( 0.004474) 0.969900 0.969900 --->beagle2-----dash-----: 4.22e-04 0.003579 3.56e-01 0.000974 0.969457 ( 0.004483) 0.968483 ( 0.011344) 0.969900 0.966063 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.969451 ( 0.004484) 0.969457 ( 0.004483) 0.969897 0.969900 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.969451 ( 0.004484) 0.969451 ( 0.004474) 0.969897 0.969900 --->plink-------dash-----: 4.27e-04 0.003571 3.59e-01 0.000968 0.969451 ( 0.004484) 0.968483 ( 0.011344) 0.969897 0.966063 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.969457 ( 0.004483) 0.969451 ( 0.004474) 0.969900 0.969900 --->germline1---dash-----: 4.22e-04 0.003579 3.56e-01 0.000974 0.969457 ( 0.004483) 0.968483 ( 0.011344) 0.969900 0.966063 --->germline2---dash-----: 4.22e-04 0.003575 3.6e-01 0.000967 0.969451 ( 0.004474) 0.968483 ( 0.011344) 0.969900 0.966063 ######specifitySnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.563504 ( 0.093824) 0.000000 ( 0.000000) 0.557573 0.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.563504 ( 0.093824) 0.000000 ( 0.000000) 0.557573 0.000000 --->fabia-------plink----: 3.96e-18 0.562438 1.12e-79 0.563308 0.563504 ( 0.093824) 0.000196 ( 0.000143) 0.557573 0.000104 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.563504 ( 0.093824) 0.000000 ( 0.000000) 0.557573 0.000000 --->fabia-------germline2: 3.96e-18 0.562234 1.08e-79 0.563242 0.563504 ( 0.093824) 0.000262 ( 0.001846) 0.557573 0.000000 --->fabia-------dash-----: 3.96e-18 0.395113 7.83e-58 0.394358 0.563504 ( 0.093824) 0.169146 ( 0.076777) 0.557573 0.161048 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000196 ( 0.000143) 0.000000 0.000104 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000262 ( 0.001846) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.169146 ( 0.076777) 0.000000 0.161048 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000196 ( 0.000143) 0.000000 0.000104 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000262 ( 0.001846) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.169146 ( 0.076777) 0.000000 0.161048 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000196 ( 0.000143) 0.000000 ( 0.000000) 0.000104 0.000000 --->plink-------germline2: 1.29e-15 0.000156 1e+00 0.000000 0.000196 ( 0.000143) 0.000262 ( 0.001846) 0.000104 0.000000 --->plink-------dash-----: 3.96e-18 -0.165478 6.51e-40 -0.168951 0.000196 ( 0.000143) 0.169146 ( 0.076777) 0.000104 0.161048 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000262 ( 0.001846) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.169146 ( 0.076777) 0.000000 0.161048 --->germline2---dash-----: 3.96e-18 -0.165496 6.22e-40 -0.168884 0.000262 ( 0.001846) 0.169146 ( 0.076777) 0.000000 0.161048 ######sensitivitySnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.852653 ( 0.270731) 1.000000 ( 0.000000) 0.966019 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.852653 ( 0.270731) 1.000000 ( 0.000000) 0.966019 1.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.852653 ( 0.270731) 1.000000 ( 0.000000) 0.966019 1.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.852653 ( 0.270731) 1.000000 ( 0.000000) 0.966019 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.852653 ( 0.270731) 1.000000 ( 0.000000) 0.966019 1.000000 --->fabia-------dash-----: 1.61e-01 -0.036550 7.97e-01 -0.010233 0.852653 ( 0.270731) 0.862886 ( 0.286670) 0.966019 1.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.862886 ( 0.286670) 1.000000 1.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.862886 ( 0.286670) 1.000000 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.862886 ( 0.286670) 1.000000 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.862886 ( 0.286670) 1.000000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.862886 ( 0.286670) 1.000000 1.000000 ######trueNSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 5463 ( 907) 0 ( 0) 5408 0 --->fabia-------beagle2--: 1e+00 0 1e+00 0 5463 ( 907) 0 ( 0) 5408 0 --->fabia-------plink----: 3.96e-18 5457 8.39e-80 5461 5463 ( 907) 1.9 ( 1.4) 5408 1 --->fabia-------germline1: 1e+00 0 1e+00 0 5463 ( 907) 0 ( 0) 5408 0 --->fabia-------germline2: 3.96e-18 5452 8e-80 5460 5463 ( 907) 2.56 ( 18) 5408 0 --->fabia-------dash-----: 3.96e-18 3827 6.46e-58 3822 5463 ( 907) 1640 ( 747) 5408 1560 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 1.900000 ( 1.396243) 0.000000 1.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 2.560000 (18.010278) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 0 ( 0) 1640 ( 747) 0 1560 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 1.900000 ( 1.396243) 0.000000 1.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 2.560000 (18.010278) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 0 ( 0) 1640 ( 747) 0 1560 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 1.900000 ( 1.396243) 0.000000 ( 0.000000) 1.000000 0.000000 --->plink-------germline2: 3.25e-16 1.500020 6.99e-01 -0.660000 1.900000 ( 1.396243) 2.560000 (18.010278) 1.000000 0.000000 --->plink-------dash-----: 3.94e-18 -1604 8.44e-40 -1639 1.9 ( 1.4) 1640 ( 747) 1 1560 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 2.560000 (18.010278) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 1640 ( 747) 0 1560 --->germline2---dash-----: 3.93e-18 -1604 8.03e-40 -1638 2.56 ( 18) 1640 ( 747) 0 1560 ######falsePSnps###### --->fabia-------beagle1--: 3.96e-18 -5459 8.05e-80 -5463 4232 ( 911) 9695 ( 44.8) 4291 9699 --->fabia-------beagle2--: 3.96e-18 -5459 8.05e-80 -5463 4232 ( 911) 9695 ( 44.8) 4291 9699 --->fabia-------plink----: 3.96e-18 -5457 8.39e-80 -5461 4232 ( 911) 9693 ( 44.7) 4291 9698 --->fabia-------germline1: 3.96e-18 -5459 8.05e-80 -5463 4232 ( 911) 9695 ( 44.8) 4291 9699 --->fabia-------germline2: 3.96e-18 -5453 8e-80 -5460 4232 ( 911) 9692 ( 44.7) 4291 9698 --->fabia-------dash-----: 3.96e-18 -3827 6.46e-58 -3822 4232 ( 911) 8054 ( 739) 4291 8115 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 9695 ( 44.8) 9695 ( 44.8) 9699 9699 --->beagle1-----plink----: 7.83e-19 1.5 2.11e-24 1.9 9695 ( 44.8) 9693 ( 44.7) 9699 9698 --->beagle1-----germline1: 1e+00 0 1e+00 0 9695 ( 44.8) 9695 ( 44.8) 9699 9699 --->beagle1-----germline2: 1e+00 0 1.58e-01 2.56 9695 ( 44.8) 9692 ( 44.7) 9699 9698 --->beagle1-----dash-----: 3.93e-18 1607 7.74e-40 1640 9695 ( 44.8) 8054 ( 739) 9699 8115 --->beagle2-----plink----: 7.83e-19 1.5 2.11e-24 1.9 9695 ( 44.8) 9693 ( 44.7) 9699 9698 --->beagle2-----germline1: 1e+00 0 1e+00 0 9695 ( 44.8) 9695 ( 44.8) 9699 9699 --->beagle2-----germline2: 1e+00 0 1.58e-01 2.56 9695 ( 44.8) 9692 ( 44.7) 9699 9698 --->beagle2-----dash-----: 3.93e-18 1607 7.74e-40 1640 9695 ( 44.8) 8054 ( 739) 9699 8115 --->plink-------germline1: 7.83e-19 -1.5 2.11e-24 -1.9 9693 ( 44.7) 9695 ( 44.8) 9698 9699 --->plink-------germline2: 3.25e-16 -1.5 6.99e-01 0.66 9693 ( 44.7) 9692 ( 44.7) 9698 9698 --->plink-------dash-----: 3.94e-18 1604 8.44e-40 1639 9693 ( 44.7) 8054 ( 739) 9698 8115 --->germline1---germline2: 1e+00 0 1.58e-01 2.56 9695 ( 44.8) 9692 ( 44.7) 9699 9698 --->germline1---dash-----: 3.93e-18 1607 7.74e-40 1640 9695 ( 44.8) 8054 ( 739) 9699 8115 --->germline2---dash-----: 3.93e-18 1604 8.03e-40 1638 9692 ( 44.7) 8054 ( 739) 9698 8115 ######falseNSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 43.8 ( 78) 0 ( 0) 10 0 --->fabia-------beagle2--: 1e+00 0 1e+00 0 43.8 ( 78) 0 ( 0) 10 0 --->fabia-------plink----: 1e+00 0 1e+00 0 43.8 ( 78) 0 ( 0) 10 0 --->fabia-------germline1: 1e+00 0 1e+00 0 43.8 ( 78) 0 ( 0) 10 0 --->fabia-------germline2: 1e+00 0 1e+00 0 43.8 ( 78) 0 ( 0) 10 0 --->fabia-------dash-----: 1.82e-01 12 8.69e-01 1.93 43.8 ( 78) 41.9 ( 87.1) 10 0 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 41.880000 (87.107304) 0.000000 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 41.880000 (87.107304) 0.000000 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 41.880000 (87.107304) 0.000000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 41.880000 (87.107304) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 41.880000 (87.107304) 0.000000 0.000000 ######truePSnps###### --->fabia-------beagle1--: 3.59e-12 -39.5 1.8e-07 -43.8 262 ( 91) 305 ( 44.8) 277 301 --->fabia-------beagle2--: 3.59e-12 -39.5 1.8e-07 -43.8 262 ( 91) 305 ( 44.8) 277 301 --->fabia-------plink----: 3.59e-12 -39.5 1.8e-07 -43.8 262 ( 91) 305 ( 44.8) 277 301 --->fabia-------germline1: 3.59e-12 -39.5 1.8e-07 -43.8 262 ( 91) 305 ( 44.8) 277 301 --->fabia-------germline2: 3.59e-12 -39.5 1.8e-07 -43.8 262 ( 91) 305 ( 44.8) 277 301 --->fabia-------dash-----: 1.82e-01 -12 8.69e-01 -1.93 262 ( 91) 264 ( 95.2) 277 284 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->beagle1-----plink----: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->beagle1-----germline1: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->beagle1-----germline2: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->beagle1-----dash-----: 5.93e-06 157 5.45e-06 41.9 305 ( 44.8) 264 ( 95.2) 301 284 --->beagle2-----plink----: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->beagle2-----germline1: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->beagle2-----germline2: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->beagle2-----dash-----: 5.93e-06 157 5.45e-06 41.9 305 ( 44.8) 264 ( 95.2) 301 284 --->plink-------germline1: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->plink-------germline2: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->plink-------dash-----: 5.93e-06 157 5.45e-06 41.9 305 ( 44.8) 264 ( 95.2) 301 284 --->germline1---germline2: 1e+00 0 1e+00 0 305 ( 44.8) 305 ( 44.8) 301 301 --->germline1---dash-----: 5.93e-06 157 5.45e-06 41.9 305 ( 44.8) 264 ( 95.2) 301 284 --->germline2---dash-----: 5.93e-06 157 5.45e-06 41.9 305 ( 44.8) 264 ( 95.2) 301 284 ######MatthewsSample###### --->fabia-------beagle1--: 3.52e-16 0.175662 2.66e-28 0.166268 0.174538 ( 0.100568) 0.008270 ( 0.041598) 0.213556 0.002929 --->fabia-------beagle2--: 6.63e-17 0.183841 8.36e-31 0.173095 0.174538 ( 0.100568) 0.001443 ( 0.031963) 0.213556 0.002431 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.174538 ( 0.100568) 0.000000 ( 0.000000) 0.213556 0.000000 --->fabia-------germline1: 3.42e-16 0.187515 1.41e-29 0.166982 0.174538 ( 0.100568) 0.007555 ( 0.024261) 0.213556 0.018125 --->fabia-------germline2: 1.54e-16 0.195909 1.28e-30 0.176014 0.174538 ( 0.100568) -0.001476 ( 0.031216) 0.213556 -0.001783 --->fabia-------dash-----: 7.9e-17 0.198421 4.95e-32 0.178708 0.174538 ( 0.100568) -0.004170 ( 0.031045) 0.213556 -0.006208 --->beagle1-----beagle2--: 3.85e-01 0.003835 1.02e-01 0.006827 0.008270 ( 0.041598) 0.001443 ( 0.031963) 0.002929 0.002431 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.008270 ( 0.041598) 0.000000 ( 0.000000) 0.002929 0.000000 --->beagle1-----germline1: 5.42e-01 -0.003013 8.91e-01 0.000715 0.008270 ( 0.041598) 0.007555 ( 0.024261) 0.002929 0.018125 --->beagle1-----germline2: 2.23e-01 0.007605 1.04e-01 0.009746 0.008270 ( 0.041598) -0.001476 ( 0.031216) 0.002929 -0.001783 --->beagle1-----dash-----: 1.13e-01 0.009999 3.46e-02 0.012440 0.008270 ( 0.041598) -0.004170 ( 0.031045) 0.002929 -0.006208 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.001443 ( 0.031963) 0.000000 ( 0.000000) 0.002431 0.000000 --->beagle2-----germline1: 7.08e-02 -0.007199 1.55e-01 -0.006112 0.001443 ( 0.031963) 0.007555 ( 0.024261) 0.002431 0.018125 --->beagle2-----germline2: 8.84e-01 -0.000648 5.84e-01 0.002919 0.001443 ( 0.031963) -0.001476 ( 0.031216) 0.002431 -0.001783 --->beagle2-----dash-----: 4.46e-01 0.005036 3e-01 0.005613 0.001443 ( 0.031963) -0.004170 ( 0.031045) 0.002431 -0.006208 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.007555 ( 0.024261) 0.000000 0.018125 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) -0.001476 ( 0.031216) 0.000000 -0.001783 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) -0.004170 ( 0.031045) 0.000000 -0.006208 --->germline1---germline2: 8.53e-02 0.009010 1.48e-02 0.009031 0.007555 ( 0.024261) -0.001476 ( 0.031216) 0.018125 -0.001783 --->germline1---dash-----: 2.58e-03 0.011608 1.78e-03 0.011725 0.007555 ( 0.024261) -0.004170 ( 0.031045) 0.018125 -0.006208 --->germline2---dash-----: 3.45e-01 0.001609 1.62e-01 0.002694 -0.001476 ( 0.031216) -0.004170 ( 0.031045) -0.001783 -0.006208 ######F1Sample###### --->fabia-------beagle1--: 5.14e-15 0.068385 3.33e-23 0.064650 0.085985 ( 0.049396) 0.021335 ( 0.009277) 0.095924 0.020165 --->fabia-------beagle2--: 1.18e-15 0.070089 1.4e-23 0.066559 0.085985 ( 0.049396) 0.019426 ( 0.012882) 0.095924 0.019950 --->fabia-------plink----: 3.47e-15 0.070086 5.3e-24 0.066242 0.085985 ( 0.049396) 0.019743 ( 0.000336) 0.095924 0.019802 --->fabia-------germline1: 3.59e-15 0.069916 6.68e-24 0.065967 0.085985 ( 0.049396) 0.020018 ( 0.001055) 0.095924 0.020408 --->fabia-------germline2: 2.88e-15 0.070524 4.42e-24 0.066452 0.085985 ( 0.049396) 0.019533 ( 0.003011) 0.095924 0.019548 --->fabia-------dash-----: 2.24e-15 0.070813 1.94e-24 0.066810 0.085985 ( 0.049396) 0.019175 ( 0.003679) 0.095924 0.018983 --->beagle1-----beagle2--: 2.57e-01 0.001565 1.32e-01 0.001908 0.021335 ( 0.009277) 0.019426 ( 0.012882) 0.020165 0.019950 --->beagle1-----plink----: 2.87e-01 0.000813 8.85e-02 0.001592 0.021335 ( 0.009277) 0.019743 ( 0.000336) 0.020165 0.019802 --->beagle1-----germline1: 5.26e-01 0.000607 1.68e-01 0.001317 0.021335 ( 0.009277) 0.020018 ( 0.001055) 0.020165 0.020408 --->beagle1-----germline2: 2.5e-01 0.001263 9.14e-02 0.001802 0.021335 ( 0.009277) 0.019533 ( 0.003011) 0.020165 0.019548 --->beagle1-----dash-----: 1.61e-01 0.001539 4.79e-02 0.002159 0.021335 ( 0.009277) 0.019175 ( 0.003679) 0.020165 0.018983 --->beagle2-----plink----: 9.04e-01 0.000119 8.06e-01 -0.000317 0.019426 ( 0.012882) 0.019743 ( 0.000336) 0.019950 0.019802 --->beagle2-----germline1: 8.35e-01 -2e-04 6.5e-01 -0.000592 0.019426 ( 0.012882) 0.020018 ( 0.001055) 0.019950 0.020408 --->beagle2-----germline2: 9.41e-01 -7.99e-05 9.41e-01 -0.000107 0.019426 ( 0.012882) 0.019533 ( 0.003011) 0.019950 0.019548 --->beagle2-----dash-----: 9.96e-01 4.09e-05 8.67e-01 0.000251 0.019426 ( 0.012882) 0.019175 ( 0.003679) 0.019950 0.018983 --->plink-------germline1: 9.38e-03 -0.000583 7.07e-03 -0.000275 0.019743 ( 0.000336) 0.020018 ( 0.001055) 0.019802 0.020408 --->plink-------germline2: 4.22e-01 0.000197 4.78e-01 0.000210 0.019743 ( 0.000336) 0.019533 ( 0.003011) 0.019802 0.019548 --->plink-------dash-----: 1.61e-01 0.000539 1.21e-01 0.000568 0.019743 ( 0.000336) 0.019175 ( 0.003679) 0.019802 0.018983 --->germline1---germline2: 2.43e-01 0.000188 1.05e-01 0.000485 0.020018 ( 0.001055) 0.019533 ( 0.003011) 0.020408 0.019548 --->germline1---dash-----: 5.23e-02 0.000812 2.19e-02 0.000843 0.020018 ( 0.001055) 0.019175 ( 0.003679) 0.020408 0.018983 --->germline2---dash-----: 1.16e-01 0.000270 9.79e-02 0.000358 0.019533 ( 0.003011) 0.019175 ( 0.003679) 0.019548 0.018983 ######accuracySample###### --->fabia-------beagle1--: 3.95e-18 0.351281 4.62e-102 0.349630 0.912640 ( 0.023719) 0.563010 ( 0.022059) 0.912500 0.560500 --->fabia-------beagle2--: 3.95e-18 0.100779 2.14e-61 0.100290 0.912640 ( 0.023719) 0.812350 ( 0.011594) 0.912500 0.810500 --->fabia-------plink----: 3.95e-18 0.902764 1.57e-158 0.902670 0.912640 ( 0.023719) 0.009970 ( 0.000171) 0.912500 0.010000 --->fabia-------germline1: 3.95e-18 0.862477 6.4e-154 0.862300 0.912640 ( 0.023719) 0.050340 ( 0.014033) 0.912500 0.049000 --->fabia-------germline2: 3.95e-18 0.719745 7.24e-148 0.719300 0.912640 ( 0.023719) 0.193340 ( 0.010301) 0.912500 0.193000 --->fabia-------dash-----: 3.95e-18 0.656037 1.96e-115 0.650560 0.912640 ( 0.023719) 0.262080 ( 0.044395) 0.912500 0.248000 --->beagle1-----beagle2--: 3.93e-18 -0.249000 2.6e-111 -0.249340 0.563010 ( 0.022059) 0.812350 ( 0.011594) 0.560500 0.810500 --->beagle1-----plink----: 3.93e-18 0.552591 1.4e-140 0.553040 0.563010 ( 0.022059) 0.009970 ( 0.000171) 0.560500 0.010000 --->beagle1-----germline1: 3.95e-18 0.513562 9.73e-129 0.512670 0.563010 ( 0.022059) 0.050340 ( 0.014033) 0.560500 0.049000 --->beagle1-----germline2: 3.95e-18 0.370412 1.93e-118 0.369670 0.563010 ( 0.022059) 0.193340 ( 0.010301) 0.560500 0.193000 --->beagle1-----dash-----: 3.95e-18 0.307023 1.21e-76 0.300930 0.563010 ( 0.022059) 0.262080 ( 0.044395) 0.560500 0.248000 --->beagle2-----plink----: 3.89e-18 0.802486 3.42e-184 0.802380 0.812350 ( 0.011594) 0.009970 ( 0.000171) 0.810500 0.010000 --->beagle2-----germline1: 3.94e-18 0.762011 5.86e-165 0.762010 0.812350 ( 0.011594) 0.050340 ( 0.014033) 0.810500 0.049000 --->beagle2-----germline2: 3.93e-18 0.619436 1.5e-159 0.619010 0.812350 ( 0.011594) 0.193340 ( 0.010301) 0.810500 0.193000 --->beagle2-----dash-----: 3.95e-18 0.557047 1.23e-107 0.550270 0.812350 ( 0.011594) 0.262080 ( 0.044395) 0.810500 0.248000 --->plink-------germline1: 3.92e-18 -0.039445 8.14e-50 -0.040370 0.009970 ( 0.000171) 0.050340 ( 0.014033) 0.010000 0.049000 --->plink-------germline2: 3.9e-18 -0.183047 6.28e-126 -0.183370 0.009970 ( 0.000171) 0.193340 ( 0.010301) 0.010000 0.193000 --->plink-------dash-----: 3.94e-18 -0.245033 2.32e-77 -0.252110 0.009970 ( 0.000171) 0.262080 ( 0.044395) 0.010000 0.248000 --->germline1---germline2: 3.93e-18 -0.143045 4.31e-109 -0.143000 0.050340 ( 0.014033) 0.193340 ( 0.010301) 0.049000 0.193000 --->germline1---dash-----: 3.95e-18 -0.205497 5.37e-75 -0.211740 0.050340 ( 0.014033) 0.262080 ( 0.044395) 0.049000 0.248000 --->germline2---dash-----: 3.94e-18 -0.062537 1.53e-33 -0.068740 0.193340 ( 0.010301) 0.262080 ( 0.044395) 0.193000 0.248000 ######FPRSample###### --->fabia-------beagle1--: 3.96e-18 -0.350928 1.58e-101 -0.349438 0.086704 ( 0.023884) 0.436141 ( 0.022172) 0.087940 0.437374 --->fabia-------beagle2--: 3.96e-18 -0.094930 3.72e-59 -0.094660 0.086704 ( 0.023884) 0.181364 ( 0.011833) 0.087940 0.182828 --->fabia-------plink----: 3.95e-18 -0.913341 9.77e-159 -0.913327 0.086704 ( 0.023884) 1.000030 ( 0.000173) 0.087940 1.000000 --->fabia-------germline1: 3.96e-18 -0.872487 6.92e-154 -0.872276 0.086704 ( 0.023884) 0.958980 ( 0.014318) 0.087940 0.960606 --->fabia-------germline2: 3.96e-18 -0.726662 1.48e-147 -0.726155 0.086704 ( 0.023884) 0.812859 ( 0.010665) 0.087940 0.813131 --->fabia-------dash-----: 3.96e-18 -0.661560 5.93e-115 -0.655892 0.086704 ( 0.023884) 0.742596 ( 0.045322) 0.087940 0.756566 --->beagle1-----beagle2--: 3.94e-18 0.254510 6.81e-112 0.254778 0.436141 ( 0.022172) 0.181364 ( 0.011833) 0.437374 0.182828 --->beagle1-----plink----: 3.93e-18 -0.563689 3.4e-141 -0.563889 0.436141 ( 0.022172) 1.000030 ( 0.000173) 0.437374 1.000000 --->beagle1-----germline1: 3.95e-18 -0.523722 6.39e-129 -0.522838 0.436141 ( 0.022172) 0.958980 ( 0.014318) 0.437374 0.960606 --->beagle1-----germline2: 3.95e-18 -0.377719 1.61e-118 -0.376717 0.436141 ( 0.022172) 0.812859 ( 0.010665) 0.437374 0.813131 --->beagle1-----dash-----: 3.95e-18 -0.312676 1.55e-76 -0.306455 0.436141 ( 0.022172) 0.742596 ( 0.045322) 0.437374 0.756566 --->beagle2-----plink----: 3.91e-18 -0.818663 3.53e-184 -0.818667 0.181364 ( 0.011833) 1.000030 ( 0.000173) 0.182828 1.000000 --->beagle2-----germline1: 3.94e-18 -0.777835 2.37e-164 -0.777616 0.181364 ( 0.011833) 0.958980 ( 0.014318) 0.182828 0.960606 --->beagle2-----germline2: 3.93e-18 -0.632365 1.11e-158 -0.631495 0.181364 ( 0.011833) 0.812859 ( 0.010665) 0.182828 0.813131 --->beagle2-----dash-----: 3.95e-18 -0.568650 1.62e-107 -0.561232 0.181364 ( 0.011833) 0.742596 ( 0.045322) 0.182828 0.756566 --->plink-------germline1: 3.92e-18 0.039983 1.1e-49 0.041050 1.000030 ( 0.000173) 0.958980 ( 0.014318) 1.000000 0.960606 --->plink-------germline2: 3.92e-18 0.186823 2.61e-125 0.187172 1.000030 ( 0.000173) 0.812859 ( 0.010665) 1.000000 0.813131 --->plink-------dash-----: 3.94e-18 0.250045 2.27e-77 0.257434 1.000030 ( 0.000173) 0.742596 ( 0.045322) 1.000000 0.756566 --->germline1---germline2: 3.94e-18 0.146394 5.76e-110 0.146121 0.958980 ( 0.014318) 0.812859 ( 0.010665) 0.960606 0.813131 --->germline1---dash-----: 3.94e-18 0.209624 3.32e-75 0.216384 0.958980 ( 0.014318) 0.742596 ( 0.045322) 0.960606 0.756566 --->germline2---dash-----: 3.95e-18 0.064133 1.13e-33 0.070263 0.812859 ( 0.010665) 0.742596 ( 0.045322) 0.813131 0.756566 ######FDRSample###### --->fabia-------beagle1--: 4.11e-15 -0.036437 5.14e-23 -0.034798 0.954290 ( 0.026836) 0.989088 ( 0.004747) 0.949622 0.989685 --->fabia-------beagle2--: 1.29e-15 -0.037069 4.47e-23 -0.035463 0.954290 ( 0.026836) 0.989753 ( 0.006796) 0.949622 0.989501 --->fabia-------plink----: 2.42e-15 -0.037445 8.26e-24 -0.035740 0.954290 ( 0.026836) 0.990030 ( 0.000171) 0.949622 0.990000 --->fabia-------germline1: 2.51e-15 -0.037264 1.03e-23 -0.035597 0.954290 ( 0.026836) 0.989887 ( 0.000534) 0.949622 0.989691 --->fabia-------germline2: 1.8e-15 -0.037552 7.14e-24 -0.035824 0.954290 ( 0.026836) 0.990114 ( 0.001524) 0.949622 0.990105 --->fabia-------dash-----: 1.48e-15 -0.037687 3.37e-24 -0.035993 0.954290 ( 0.026836) 0.990283 ( 0.001864) 0.949622 0.990378 --->beagle1-----beagle2--: 4.97e-01 -0.000479 3.15e-01 -0.000665 0.989088 ( 0.004747) 0.989753 ( 0.006796) 0.989685 0.989501 --->beagle1-----plink----: 1.92e-01 -0.000556 4.93e-02 -0.000942 0.989088 ( 0.004747) 0.990030 ( 0.000171) 0.989685 0.990000 --->beagle1-----germline1: 1e+00 0.000000 1.02e-01 -0.000799 0.989088 ( 0.004747) 0.989887 ( 0.000534) 0.989685 0.989691 --->beagle1-----germline2: 1.88e-01 -0.000752 6.03e-02 -0.001026 0.989088 ( 0.004747) 0.990114 ( 0.001524) 0.989685 0.990105 --->beagle1-----dash-----: 1.17e-01 -0.000876 3.23e-02 -0.001195 0.989088 ( 0.004747) 0.990283 ( 0.001864) 0.989685 0.990378 --->beagle2-----plink----: 5.04e-01 -0.000458 6.83e-01 -0.000277 0.989753 ( 0.006796) 0.990030 ( 0.000171) 0.989501 0.990000 --->beagle2-----germline1: 6.54e-01 -0.000309 8.45e-01 -0.000134 0.989753 ( 0.006796) 0.989887 ( 0.000534) 0.989501 0.989691 --->beagle2-----germline2: 6.74e-01 -0.000369 6.32e-01 -0.000361 0.989753 ( 0.006796) 0.990114 ( 0.001524) 0.989501 0.990105 --->beagle2-----dash-----: 6.12e-01 -0.000424 4.98e-01 -0.000531 0.989753 ( 0.006796) 0.990283 ( 0.001864) 0.989501 0.990378 --->plink-------germline1: 7.28e-03 3e-04 5.56e-03 0.000143 0.990030 ( 0.000171) 0.989887 ( 0.000534) 0.990000 0.989691 --->plink-------germline2: 4.82e-01 -9.95e-05 1e+00 0.000000 0.990030 ( 0.000171) 0.990114 ( 0.001524) 0.990000 0.990105 --->plink-------dash-----: 2.15e-01 -0.000237 1.71e-01 -0.000253 0.990030 ( 0.000171) 0.990283 ( 0.001864) 0.990000 0.990378 --->germline1---germline2: 3.8e-01 -7.48e-05 1.34e-01 -0.000227 0.989887 ( 0.000534) 0.990114 ( 0.001524) 0.989691 0.990105 --->germline1---dash-----: 7.86e-02 -0.000374 3.31e-02 -0.000396 0.989887 ( 0.000534) 0.990283 ( 0.001864) 0.989691 0.990378 --->germline2---dash-----: 1.47e-01 -0.000111 1.22e-01 -0.000169 0.990114 ( 0.001524) 0.990283 ( 0.001864) 0.990105 0.990378 ######specifitySample###### --->fabia-------beagle1--: 3.96e-18 0.350931 1.64e-101 0.349408 0.913296 ( 0.023884) 0.563889 ( 0.022177) 0.912060 0.562626 --->fabia-------beagle2--: 3.96e-18 0.094875 3.98e-59 0.094630 0.913296 ( 0.023884) 0.818667 ( 0.011840) 0.912060 0.817172 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.913296 ( 0.023884) 0.000000 ( 0.000000) 0.912060 0.000000 --->fabia-------germline1: 3.96e-18 0.872431 7.5e-154 0.872246 0.913296 ( 0.023884) 0.041051 ( 0.014340) 0.912060 0.039394 --->fabia-------germline2: 3.96e-18 0.726583 1.52e-147 0.726125 0.913296 ( 0.023884) 0.187172 ( 0.010660) 0.912060 0.186869 --->fabia-------dash-----: 3.96e-18 0.661465 5.93e-115 0.655862 0.913296 ( 0.023884) 0.257434 ( 0.045315) 0.912060 0.243434 --->beagle1-----beagle2--: 3.94e-18 -0.254514 6.81e-112 -0.254778 0.563889 ( 0.022177) 0.818667 ( 0.011840) 0.562626 0.817172 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.563889 ( 0.022177) 0.000000 ( 0.000000) 0.562626 0.000000 --->beagle1-----germline1: 3.95e-18 0.523677 6.39e-129 0.522838 0.563889 ( 0.022177) 0.041051 ( 0.014340) 0.562626 0.039394 --->beagle1-----germline2: 3.95e-18 0.377710 1.61e-118 0.376717 0.563889 ( 0.022177) 0.187172 ( 0.010660) 0.562626 0.186869 --->beagle1-----dash-----: 3.95e-18 0.312704 1.55e-76 0.306455 0.563889 ( 0.022177) 0.257434 ( 0.045315) 0.562626 0.243434 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.818667 ( 0.011840) 0.000000 ( 0.000000) 0.817172 0.000000 --->beagle2-----germline1: 3.95e-18 0.777793 2.37e-164 0.777616 0.818667 ( 0.011840) 0.041051 ( 0.014340) 0.817172 0.039394 --->beagle2-----germline2: 3.93e-18 0.632325 1.11e-158 0.631495 0.818667 ( 0.011840) 0.187172 ( 0.010660) 0.817172 0.186869 --->beagle2-----dash-----: 3.95e-18 0.568643 1.62e-107 0.561232 0.818667 ( 0.011840) 0.257434 ( 0.045315) 0.817172 0.243434 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.041051 ( 0.014340) 0.000000 0.039394 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.187172 ( 0.010660) 0.000000 0.186869 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.257434 ( 0.045315) 0.000000 0.243434 --->germline1---germline2: 3.95e-18 -0.146420 5.76e-110 -0.146121 0.041051 ( 0.014340) 0.187172 ( 0.010660) 0.039394 0.186869 --->germline1---dash-----: 3.95e-18 -0.209655 3.32e-75 -0.216384 0.041051 ( 0.014340) 0.257434 ( 0.045315) 0.039394 0.243434 --->germline2---dash-----: 3.95e-18 -0.064115 1.13e-33 -0.070263 0.187172 ( 0.010660) 0.257434 ( 0.045315) 0.186869 0.243434 ######sensitivitySample###### --->fabia-------beagle1--: 1.6e-09 0.399994 2.12e-10 0.306000 0.782000 ( 0.384124) 0.476000 ( 0.206030) 1.000000 0.450000 --->fabia-------beagle2--: 1.19e-15 0.700032 4.62e-28 0.595000 0.782000 ( 0.384124) 0.187000 ( 0.125251) 1.000000 0.200000 --->fabia-------plink----: 1e+00 0.000000 1.95e-07 -0.215000 0.782000 ( 0.384124) 0.997000 ( 0.017145) 1.000000 1.000000 --->fabia-------germline1: 1e+00 0.000000 4.56e-06 -0.188000 0.782000 ( 0.384124) 0.970000 ( 0.054123) 1.000000 1.000000 --->fabia-------germline2: 5.02e-01 0.100014 5.91e-01 -0.022000 0.782000 ( 0.384124) 0.804000 ( 0.127065) 1.000000 0.800000 --->fabia-------dash-----: 6.93e-02 0.150045 1.39e-01 0.060000 0.782000 ( 0.384124) 0.722000 ( 0.146046) 1.000000 0.700000 --->beagle1-----beagle2--: 7.8e-17 0.299956 5.58e-27 0.289000 0.476000 ( 0.206030) 0.187000 ( 0.125251) 0.450000 0.200000 --->beagle1-----plink----: 1.41e-17 -0.549964 3.74e-45 -0.521000 0.476000 ( 0.206030) 0.997000 ( 0.017145) 0.450000 1.000000 --->beagle1-----germline1: 1.72e-17 -0.500020 2.55e-40 -0.494000 0.476000 ( 0.206030) 0.970000 ( 0.054123) 0.450000 1.000000 --->beagle1-----germline2: 9.52e-15 -0.350037 5.67e-21 -0.328000 0.476000 ( 0.206030) 0.804000 ( 0.127065) 0.450000 0.800000 --->beagle1-----dash-----: 8.31e-11 -0.299977 7.29e-14 -0.246000 0.476000 ( 0.206030) 0.722000 ( 0.146046) 0.450000 0.700000 --->beagle2-----plink----: 2.4e-18 -0.800010 2.18e-83 -0.810000 0.187000 ( 0.125251) 0.997000 ( 0.017145) 0.200000 1.000000 --->beagle2-----germline1: 2.77e-18 -0.799929 4.46e-76 -0.783000 0.187000 ( 0.125251) 0.970000 ( 0.054123) 0.200000 1.000000 --->beagle2-----germline2: 5.2e-18 -0.649978 2.84e-50 -0.617000 0.187000 ( 0.125251) 0.804000 ( 0.127065) 0.200000 0.800000 --->beagle2-----dash-----: 1.16e-17 -0.550009 9.74e-42 -0.535000 0.187000 ( 0.125251) 0.722000 ( 0.146046) 0.200000 0.700000 --->plink-------germline1: 1e+00 0.000000 7.09e-07 0.027000 0.997000 ( 0.017145) 0.970000 ( 0.054123) 1.000000 1.000000 --->plink-------germline2: 1.17e-16 0.200010 2.52e-28 0.193000 0.997000 ( 0.017145) 0.804000 ( 0.127065) 1.000000 0.800000 --->plink-------dash-----: 1.18e-17 0.299966 5.18e-35 0.275000 0.997000 ( 0.017145) 0.722000 ( 0.146046) 1.000000 0.700000 --->germline1---germline2: 1.25e-15 0.199968 4.16e-24 0.166000 0.970000 ( 0.054123) 0.804000 ( 0.127065) 1.000000 0.800000 --->germline1---dash-----: 2.59e-17 0.250009 1.5e-32 0.248000 0.970000 ( 0.054123) 0.722000 ( 0.146046) 1.000000 0.700000 --->germline2---dash-----: 3.43e-11 0.149995 9.73e-16 0.082000 0.804000 ( 0.127065) 0.722000 ( 0.146046) 0.800000 0.700000 ######trueNSample###### --->fabia-------beagle1--: 3.95e-18 1261 1.06e-136 1259 1817 ( 47.5) 558 ( 22) 1815 557 --->fabia-------beagle2--: 3.95e-18 1007 1e-132 1007 1817 ( 47.5) 810 ( 11.7) 1815 809 --->fabia-------plink----: 1e+00 0 1e+00 0 1817 ( 47.5) 0 ( 0) 1815 0 --->fabia-------germline1: 3.95e-18 1777 3.79e-158 1777 1817 ( 47.5) 40.6 ( 14.2) 1815 39 --->fabia-------germline2: 3.95e-18 1632 1.71e-154 1632 1817 ( 47.5) 185 ( 10.6) 1815 185 --->fabia-------dash-----: 3.95e-18 1567 1.87e-142 1563 1817 ( 47.5) 255 ( 44.9) 1815 241 --->beagle1-----beagle2--: 3.92e-18 -252 6.81e-112 -252 558 ( 22) 810 ( 11.7) 557 809 --->beagle1-----plink----: 1e+00 0 1e+00 0 558 ( 22) 0 ( 0) 557 0 --->beagle1-----germline1: 3.94e-18 518 6.39e-129 518 558 ( 22) 40.6 ( 14.2) 557 39 --->beagle1-----germline2: 3.94e-18 374 1.61e-118 373 558 ( 22) 185 ( 10.6) 557 185 --->beagle1-----dash-----: 3.95e-18 310 1.55e-76 303 558 ( 22) 255 ( 44.9) 557 241 --->beagle2-----plink----: 1e+00 0 1e+00 0 810 ( 11.7) 0 ( 0) 809 0 --->beagle2-----germline1: 3.92e-18 770 2.37e-164 770 810 ( 11.7) 40.6 ( 14.2) 809 39 --->beagle2-----germline2: 3.91e-18 626 1.11e-158 625 810 ( 11.7) 185 ( 10.6) 809 185 --->beagle2-----dash-----: 3.95e-18 563 1.62e-107 556 810 ( 11.7) 255 ( 44.9) 809 241 --->plink-------germline1: 1e+00 0 1e+00 0 0 ( 0) 40.6 ( 14.2) 0 39 --->plink-------germline2: 1e+00 0 1e+00 0 0 ( 0) 185 ( 10.6) 0 185 --->plink-------dash-----: 1e+00 0 1e+00 0 0 ( 0) 255 ( 44.9) 0 241 --->germline1---germline2: 3.91e-18 -145 5.76e-110 -145 40.6 ( 14.2) 185 ( 10.6) 39 185 --->germline1---dash-----: 3.93e-18 -208 3.32e-75 -214 40.6 ( 14.2) 255 ( 44.9) 39 241 --->germline2---dash-----: 3.94e-18 -63.5 1.13e-33 -69.6 185 ( 10.6) 255 ( 44.9) 185 241 ######falsePSample###### --->fabia-------beagle1--: 3.95e-18 -261 1.21e-69 -259 173 ( 47.5) 432 ( 22) 175 433 --->fabia-------beagle2--: 1.35e-01 -7.5 1.49e-01 -7.01 173 ( 47.5) 180 ( 11.7) 175 181 --->fabia-------plink----: 3.95e-18 -817 1.96e-124 -817 173 ( 47.5) 990 ( 0.171) 175 990 --->fabia-------germline1: 3.95e-18 -777 1.19e-122 -777 173 ( 47.5) 949 ( 14.2) 175 951 --->fabia-------germline2: 3.95e-18 -632 8.05e-114 -632 173 ( 47.5) 805 ( 10.6) 175 805 --->fabia-------dash-----: 3.95e-18 -567 9.65e-99 -563 173 ( 47.5) 735 ( 44.9) 175 749 --->beagle1-----beagle2--: 3.92e-18 252 6.81e-112 252 432 ( 22) 180 ( 11.7) 433 181 --->beagle1-----plink----: 3.93e-18 -558 3.4e-141 -558 432 ( 22) 990 ( 0.171) 433 990 --->beagle1-----germline1: 3.94e-18 -518 6.39e-129 -518 432 ( 22) 949 ( 14.2) 433 951 --->beagle1-----germline2: 3.94e-18 -374 1.61e-118 -373 432 ( 22) 805 ( 10.6) 433 805 --->beagle1-----dash-----: 3.95e-18 -310 1.55e-76 -303 432 ( 22) 735 ( 44.9) 433 749 --->beagle2-----plink----: 3.91e-18 -810 3.53e-184 -810 180 ( 11.7) 990 ( 0.171) 181 990 --->beagle2-----germline1: 3.92e-18 -770 2.37e-164 -770 180 ( 11.7) 949 ( 14.2) 181 951 --->beagle2-----germline2: 3.91e-18 -626 1.11e-158 -625 180 ( 11.7) 805 ( 10.6) 181 805 --->beagle2-----dash-----: 3.95e-18 -563 1.62e-107 -556 180 ( 11.7) 735 ( 44.9) 181 749 --->plink-------germline1: 3.92e-18 39.5 1.1e-49 40.6 990 ( 0.171) 949 ( 14.2) 990 951 --->plink-------germline2: 3.91e-18 185 2.61e-125 185 990 ( 0.171) 805 ( 10.6) 990 805 --->plink-------dash-----: 3.94e-18 248 2.27e-77 255 990 ( 0.171) 735 ( 44.9) 990 749 --->germline1---germline2: 3.91e-18 145 5.76e-110 145 949 ( 14.2) 805 ( 10.6) 951 805 --->germline1---dash-----: 3.93e-18 208 3.32e-75 214 949 ( 14.2) 735 ( 44.9) 951 749 --->germline2---dash-----: 3.94e-18 63.5 1.13e-33 69.6 805 ( 10.6) 735 ( 44.9) 805 749 ######falseNSample###### --->fabia-------beagle1--: 3.18e-09 -4 2.93e-10 -3.03 2.18 ( 3.84) 5.21 ( 2.05) 0 5.5 --->fabia-------beagle2--: 1.19e-15 -7 6.38e-28 -5.92 2.18 ( 3.84) 8.1 ( 1.24) 0 8 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 2.180000 ( 3.841243) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------germline1: 1e+00 0.000000 3.32e-06 1.910000 2.180000 ( 3.841243) 0.270000 ( 0.509605) 0.000000 0.000000 --->fabia-------germline2: 5.55e-01 -1 5.41e-01 0.25 2.18 ( 3.84) 1.93 ( 1.24) 0 2 --->fabia-------dash-----: 8.21e-02 -1.5 1.59e-01 -0.57 2.18 ( 3.84) 2.75 ( 1.44) 0 3 --->beagle1-----beagle2--: 6e-17 -3 5.58e-27 -2.89 5.21 ( 2.05) 8.1 ( 1.24) 5.5 8 --->beagle1-----plink----: 1e+00 0 1e+00 0 5.21 ( 2.05) 0 ( 0) 5.5 0 --->beagle1-----germline1: 1.65e-17 5 2.55e-40 4.94 5.21 ( 2.05) 0.27 ( 0.51) 5.5 0 --->beagle1-----germline2: 1.09e-14 3.5 5.67e-21 3.28 5.21 ( 2.05) 1.93 ( 1.24) 5.5 2 --->beagle1-----dash-----: 5.91e-11 3 7.29e-14 2.46 5.21 ( 2.05) 2.75 ( 1.44) 5.5 3 --->beagle2-----plink----: 1e+00 0 1e+00 0 8.1 ( 1.24) 0 ( 0) 8 0 --->beagle2-----germline1: 2.68e-18 8 4.46e-76 7.83 8.1 ( 1.24) 0.27 ( 0.51) 8 0 --->beagle2-----germline2: 4.59e-18 6.5 2.84e-50 6.17 8.1 ( 1.24) 1.93 ( 1.24) 8 2 --->beagle2-----dash-----: 1.04e-17 5.5 9.74e-42 5.35 8.1 ( 1.24) 2.75 ( 1.44) 8 3 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.270000 ( 0.509605) 0.000000 0.000000 --->plink-------germline2: 1e+00 0 1e+00 0 0 ( 0) 1.93 ( 1.24) 0 2 --->plink-------dash-----: 1e+00 0 1e+00 0 0 ( 0) 2.75 ( 1.44) 0 3 --->germline1---germline2: 1.09e-15 -2 4.16e-24 -1.66 0.27 ( 0.51) 1.93 ( 1.24) 0 2 --->germline1---dash-----: 2.42e-17 -2.5 1.5e-32 -2.48 0.27 ( 0.51) 2.75 ( 1.44) 0 3 --->germline2---dash-----: 1.07e-11 -1.5 9.73e-16 -0.82 1.93 ( 1.24) 2.75 ( 1.44) 2 3 ######truePSample###### --->fabia-------beagle1--: 2.39e-09 4 2.12e-10 3.06 7.82 ( 3.84) 4.76 ( 2.06) 10 4.5 --->fabia-------beagle2--: 9.79e-16 7 4.62e-28 5.95 7.82 ( 3.84) 1.87 ( 1.25) 10 2 --->fabia-------plink----: 1e+00 0 1.95e-07 -2.15 7.82 ( 3.84) 9.97 ( 0.171) 10 10 --->fabia-------germline1: 1e+00 0 4.56e-06 -1.88 7.82 ( 3.84) 9.7 ( 0.541) 10 10 --->fabia-------germline2: 4.99e-01 1 5.91e-01 -0.22 7.82 ( 3.84) 8.04 ( 1.27) 10 8 --->fabia-------dash-----: 6.77e-02 1.5 1.39e-01 0.6 7.82 ( 3.84) 7.22 ( 1.46) 10 7 --->beagle1-----beagle2--: 6e-17 3 5.58e-27 2.89 4.76 ( 2.06) 1.87 ( 1.25) 4.5 2 --->beagle1-----plink----: 1.39e-17 -5.5 3.74e-45 -5.21 4.76 ( 2.06) 9.97 ( 0.171) 4.5 10 --->beagle1-----germline1: 1.65e-17 -5 2.55e-40 -4.94 4.76 ( 2.06) 9.7 ( 0.541) 4.5 10 --->beagle1-----germline2: 1.09e-14 -3.5 5.67e-21 -3.28 4.76 ( 2.06) 8.04 ( 1.27) 4.5 8 --->beagle1-----dash-----: 5.91e-11 -3 7.29e-14 -2.46 4.76 ( 2.06) 7.22 ( 1.46) 4.5 7 --->beagle2-----plink----: 2.4e-18 -8 2.18e-83 -8.1 1.87 ( 1.25) 9.97 ( 0.171) 2 10 --->beagle2-----germline1: 2.68e-18 -8 4.46e-76 -7.83 1.87 ( 1.25) 9.7 ( 0.541) 2 10 --->beagle2-----germline2: 4.59e-18 -6.5 2.84e-50 -6.17 1.87 ( 1.25) 8.04 ( 1.27) 2 8 --->beagle2-----dash-----: 1.04e-17 -5.5 9.74e-42 -5.35 1.87 ( 1.25) 7.22 ( 1.46) 2 7 --->plink-------germline1: 1e+00 0 7.09e-07 0.27 9.97 ( 0.171) 9.7 ( 0.541) 10 10 --->plink-------germline2: 1.11e-16 2 2.52e-28 1.93 9.97 ( 0.171) 8.04 ( 1.27) 10 8 --->plink-------dash-----: 1.18e-17 3 5.18e-35 2.75 9.97 ( 0.171) 7.22 ( 1.46) 10 7 --->germline1---germline2: 1.09e-15 2 4.16e-24 1.66 9.7 ( 0.541) 8.04 ( 1.27) 10 8 --->germline1---dash-----: 2.42e-17 2.5 1.5e-32 2.48 9.7 ( 0.541) 7.22 ( 1.46) 10 7 --->germline2---dash-----: 1.07e-11 1.5 9.73e-16 0.82 8.04 ( 1.27) 7.22 ( 1.46) 8 7