Results: Wilcoxon-Rank-Sum Wilcoxon-median t-test t-test-mean mean1 (std) mean2 (std) median1 median2 ######Matthews###### --->fabia-------beagle1--: 3.96e-18 0.718805 7.53e-93 0.714137 0.823560 ( 0.073440) 0.109423 ( 0.046348) 0.835178 0.108826 --->fabia-------beagle2--: 3.96e-18 0.716083 8.87e-87 0.711603 0.823560 ( 0.073440) 0.111957 ( 0.057574) 0.835178 0.110709 --->fabia-------plink----: 1.24e-10 0.071717 2.81e-13 0.065822 0.823560 ( 0.073440) 0.757737 ( 0.032233) 0.835178 0.760788 --->fabia-------germline1: 3.96e-18 0.767144 4.61e-103 0.761241 0.823560 ( 0.073440) 0.062319 ( 0.012937) 0.835178 0.064264 --->fabia-------germline2: 3.96e-18 0.781978 2.55e-102 0.776783 0.823560 ( 0.073440) 0.046777 ( 0.018097) 0.835178 0.046928 --->fabia-------dash-----: 3.96e-18 0.804970 4.51e-105 0.798277 0.823560 ( 0.073440) 0.025282 ( 0.003081) 0.835178 0.025297 --->beagle1-----beagle2--: 6.46e-01 -0.002731 6.13e-01 -0.002534 0.109423 ( 0.046348) 0.111957 ( 0.057574) 0.108826 0.110709 --->beagle1-----plink----: 3.96e-18 -0.648331 5.55e-108 -0.648315 0.109423 ( 0.046348) 0.757737 ( 0.032233) 0.108826 0.760788 --->beagle1-----germline1: 3.97e-13 0.046963 1.19e-16 0.047104 0.109423 ( 0.046348) 0.062319 ( 0.012937) 0.108826 0.064264 --->beagle1-----germline2: 2.8e-15 0.063648 3.88e-22 0.062646 0.109423 ( 0.046348) 0.046777 ( 0.018097) 0.108826 0.046928 --->beagle1-----dash-----: 7.22e-18 0.083774 2.17e-33 0.084140 0.109423 ( 0.046348) 0.025282 ( 0.003081) 0.108826 0.025297 --->beagle2-----plink----: 3.96e-18 -0.648663 1.2e-98 -0.645781 0.111957 ( 0.057574) 0.757737 ( 0.032233) 0.110709 0.760788 --->beagle2-----germline1: 1.05e-10 0.050801 8.81e-13 0.049638 0.111957 ( 0.057574) 0.062319 ( 0.012937) 0.110709 0.064264 --->beagle2-----germline2: 1.28e-13 0.065903 1.41e-17 0.065180 0.111957 ( 0.057574) 0.046777 ( 0.018097) 0.110709 0.046928 --->beagle2-----dash-----: 5.41e-17 0.087794 4.81e-27 0.086674 0.111957 ( 0.057574) 0.025282 ( 0.003081) 0.110709 0.025297 --->plink-------germline1: 3.96e-18 0.695589 7.08e-133 0.695419 0.757737 ( 0.032233) 0.062319 ( 0.012937) 0.760788 0.064264 --->plink-------germline2: 3.96e-18 0.711223 2.45e-125 0.710961 0.757737 ( 0.032233) 0.046777 ( 0.018097) 0.760788 0.046928 --->plink-------dash-----: 3.96e-18 0.732836 2.48e-136 0.732455 0.757737 ( 0.032233) 0.025282 ( 0.003081) 0.760788 0.025297 --->germline1---germline2: 2.58e-14 0.015128 7.83e-18 0.015542 0.062319 ( 0.012937) 0.046777 ( 0.018097) 0.064264 0.046928 --->germline1---dash-----: 3.96e-18 0.037463 6.23e-58 0.037037 0.062319 ( 0.012937) 0.025282 ( 0.003081) 0.064264 0.025297 --->germline2---dash-----: 3.14e-16 0.021475 1.69e-23 0.021495 0.046777 ( 0.018097) 0.025282 ( 0.003081) 0.046928 0.025297 ######F1###### --->fabia-------beagle1--: 3.96e-18 0.737313 1.28e-96 0.731942 0.818943 ( 0.075627) 0.087002 ( 0.032040) 0.831565 0.086388 --->fabia-------beagle2--: 3.96e-18 0.716546 1.26e-86 0.710738 0.818943 ( 0.075627) 0.108205 ( 0.055774) 0.831565 0.106728 --->fabia-------plink----: 6.42e-13 0.090960 2.33e-17 0.085079 0.818943 ( 0.075627) 0.733865 ( 0.038628) 0.831565 0.738169 --->fabia-------germline1: 3.96e-18 0.798888 2.01e-103 0.791935 0.818943 ( 0.075627) 0.027008 ( 0.002773) 0.831565 0.027526 --->fabia-------germline2: 3.96e-18 0.797846 4.5e-103 0.791047 0.818943 ( 0.075627) 0.027896 ( 0.005448) 0.831565 0.028206 --->fabia-------dash-----: 4.08e-18 0.209723 1.86e-47 0.203456 0.818943 ( 0.075627) 0.615488 ( 0.012567) 0.831565 0.615914 --->beagle1-----beagle2--: 2.51e-05 -0.020670 7.88e-06 -0.021203 0.087002 ( 0.032040) 0.108205 ( 0.055774) 0.086388 0.106728 --->beagle1-----plink----: 3.96e-18 -0.646936 8.6e-114 -0.646863 0.087002 ( 0.032040) 0.733865 ( 0.038628) 0.086388 0.738169 --->beagle1-----germline1: 5.35e-18 0.059265 2.15e-34 0.059993 0.087002 ( 0.032040) 0.027008 ( 0.002773) 0.086388 0.027526 --->beagle1-----germline2: 8.65e-18 0.058624 3.11e-33 0.059106 0.087002 ( 0.032040) 0.027896 ( 0.005448) 0.086388 0.028206 --->beagle1-----dash-----: 3.96e-18 -0.529246 1.3e-119 -0.528486 0.087002 ( 0.032040) 0.615488 ( 0.012567) 0.086388 0.615914 --->beagle2-----plink----: 3.96e-18 -0.628312 1.15e-96 -0.625660 0.108205 ( 0.055774) 0.733865 ( 0.038628) 0.106728 0.738169 --->beagle2-----germline1: 5.41e-17 0.081600 4.04e-26 0.081196 0.108205 ( 0.055774) 0.027008 ( 0.002773) 0.106728 0.027526 --->beagle2-----germline2: 1.09e-16 0.080229 1.98e-25 0.080309 0.108205 ( 0.055774) 0.027896 ( 0.005448) 0.106728 0.028206 --->beagle2-----dash-----: 3.96e-18 -0.507716 1.11e-95 -0.507283 0.108205 ( 0.055774) 0.615488 ( 0.012567) 0.106728 0.615914 --->plink-------germline1: 3.96e-18 0.707679 2.56e-127 0.706856 0.733865 ( 0.038628) 0.027008 ( 0.002773) 0.738169 0.027526 --->plink-------germline2: 3.96e-18 0.706794 2.89e-125 0.705969 0.733865 ( 0.038628) 0.027896 ( 0.005448) 0.738169 0.028206 --->plink-------dash-----: 4.08e-18 0.119117 9.69e-52 0.118377 0.733865 ( 0.038628) 0.615488 ( 0.012567) 0.738169 0.615914 --->germline1---germline2: 4.63e-02 -0.000944 4.37e-02 -0.000888 0.027008 ( 0.002773) 0.027896 ( 0.005448) 0.027526 0.028206 --->germline1---dash-----: 3.96e-18 -0.588858 2.53e-168 -0.588479 0.027008 ( 0.002773) 0.615488 ( 0.012567) 0.027526 0.615914 --->germline2---dash-----: 3.96e-18 -0.587920 4.64e-163 -0.587592 0.027896 ( 0.005448) 0.615488 ( 0.012567) 0.028206 0.615914 ######accuracy###### --->fabia-------beagle1--: 3.96e-18 0.044363 1.05e-60 0.044952 0.998749 ( 0.000519) 0.953798 ( 0.011924) 0.998830 0.955830 --->fabia-------beagle2--: 3.96e-18 0.010795 3.52e-49 0.011110 0.998749 ( 0.000519) 0.987639 ( 0.003893) 0.998830 0.988404 --->fabia-------plink----: 3.96e-18 0.003936 2.8e-56 0.003965 0.998749 ( 0.000519) 0.994785 ( 0.001051) 0.998830 0.994954 --->fabia-------germline1: 3.96e-18 0.388412 4.37e-157 0.388546 0.998749 ( 0.000519) 0.610204 ( 0.010581) 0.998830 0.609843 --->fabia-------germline2: 3.96e-18 0.232365 1.55e-134 0.232296 0.998749 ( 0.000519) 0.766453 ( 0.010726) 0.998830 0.766128 --->fabia-------dash-----: 3.96e-18 0.613913 1.89e-168 0.613678 0.998749 ( 0.000519) 0.385071 ( 0.012744) 0.998830 0.384978 --->beagle1-----beagle2--: 3.96e-18 -0.033037 1.29e-51 -0.033841 0.953798 ( 0.011924) 0.987639 ( 0.003893) 0.955830 0.988404 --->beagle1-----plink----: 3.96e-18 -0.040462 2.7e-57 -0.040987 0.953798 ( 0.011924) 0.994785 ( 0.001051) 0.955830 0.994954 --->beagle1-----germline1: 3.96e-18 0.343663 1.76e-133 0.343594 0.953798 ( 0.011924) 0.610204 ( 0.010581) 0.955830 0.609843 --->beagle1-----germline2: 3.96e-18 0.187751 9.45e-108 0.187345 0.953798 ( 0.011924) 0.766453 ( 0.010726) 0.955830 0.766128 --->beagle1-----dash-----: 3.96e-18 0.569248 3.62e-152 0.568727 0.953798 ( 0.011924) 0.385071 ( 0.012744) 0.955830 0.384978 --->beagle2-----plink----: 4.6e-18 -0.006798 6.01e-31 -0.007146 0.987639 ( 0.003893) 0.994785 ( 0.001051) 0.988404 0.994954 --->beagle2-----germline1: 3.96e-18 0.377347 5.68e-150 0.377435 0.987639 ( 0.003893) 0.610204 ( 0.010581) 0.988404 0.609843 --->beagle2-----germline2: 3.96e-18 0.221296 7.18e-128 0.221186 0.987639 ( 0.003893) 0.766453 ( 0.010726) 0.988404 0.766128 --->beagle2-----dash-----: 3.96e-18 0.602639 9.75e-170 0.602568 0.987639 ( 0.003893) 0.385071 ( 0.012744) 0.988404 0.384978 --->plink-------germline1: 3.96e-18 0.384451 1.05e-156 0.384581 0.994785 ( 0.001051) 0.610204 ( 0.010581) 0.994954 0.609843 --->plink-------germline2: 3.96e-18 0.228311 1.57e-133 0.228331 0.994785 ( 0.001051) 0.766453 ( 0.010726) 0.994954 0.766128 --->plink-------dash-----: 3.96e-18 0.609917 8.44e-168 0.609714 0.994785 ( 0.001051) 0.385071 ( 0.012744) 0.994954 0.384978 --->germline1---germline2: 3.96e-18 -0.156326 6.82e-148 -0.156249 0.610204 ( 0.010581) 0.766453 ( 0.010726) 0.609843 0.766128 --->germline1---dash-----: 3.96e-18 0.225188 8.63e-101 0.225133 0.610204 ( 0.010581) 0.385071 ( 0.012744) 0.609843 0.384978 --->germline2---dash-----: 3.96e-18 0.381489 7.23e-124 0.381382 0.766453 ( 0.010726) 0.385071 ( 0.012744) 0.766128 0.384978 ######FPR###### --->fabia-------beagle1--: 3.96e-18 -0.040483 2.66e-55 -0.041087 0.000417 ( 0.000440) 0.041503 ( 0.012461) 0.000164 0.039494 --->fabia-------beagle2--: 7.01e-18 -0.005178 5.06e-23 -0.005580 0.000417 ( 0.000440) 0.005997 ( 0.004310) 0.000164 0.005291 --->fabia-------plink----: 3.96e-18 -0.004723 9.76e-63 -0.004750 0.000417 ( 0.000440) 0.005167 ( 0.001068) 0.000164 0.004983 --->fabia-------germline1: 3.96e-18 -0.390298 4.54e-157 -0.390399 0.000417 ( 0.000440) 0.390816 ( 0.010617) 0.000164 0.391218 --->fabia-------germline2: 3.96e-18 -0.230972 1.32e-133 -0.230948 0.000417 ( 0.000440) 0.231364 ( 0.010898) 0.000164 0.231177 --->fabia-------dash-----: 3.96e-18 -0.986631 2.25e-278 -0.986707 0.000417 ( 0.000440) 0.987123 ( 0.001571) 0.000164 0.987116 --->beagle1-----beagle2--: 3.96e-18 0.034714 2.95e-52 0.035506 0.041503 ( 0.012461) 0.005997 ( 0.004310) 0.039494 0.005291 --->beagle1-----plink----: 3.96e-18 0.035769 8.02e-51 0.036336 0.041503 ( 0.012461) 0.005167 ( 0.001068) 0.039494 0.004983 --->beagle1-----germline1: 3.96e-18 -0.349462 6.76e-133 -0.349313 0.041503 ( 0.012461) 0.390816 ( 0.010617) 0.039494 0.391218 --->beagle1-----germline2: 3.96e-18 -0.190301 7.17e-107 -0.189861 0.041503 ( 0.012461) 0.231364 ( 0.010898) 0.039494 0.231177 --->beagle1-----dash-----: 3.96e-18 -0.946236 1.05e-187 -0.945620 0.041503 ( 0.012461) 0.987123 ( 0.001571) 0.039494 0.987116 --->beagle2-----plink----: 3.82e-01 0.000360 7.58e-02 0.000830 0.005997 ( 0.004310) 0.005167 ( 0.001068) 0.005291 0.004983 --->beagle2-----germline1: 3.96e-18 -0.384751 4.71e-150 -0.384819 0.005997 ( 0.004310) 0.390816 ( 0.010617) 0.005291 0.391218 --->beagle2-----germline2: 3.96e-18 -0.225437 2.53e-127 -0.225367 0.005997 ( 0.004310) 0.231364 ( 0.010898) 0.005291 0.231177 --->beagle2-----dash-----: 3.96e-18 -0.981424 2.74e-231 -0.981126 0.005997 ( 0.004310) 0.987123 ( 0.001571) 0.005291 0.987116 --->plink-------germline1: 3.96e-18 -0.385475 1.27e-156 -0.385649 0.005167 ( 0.001068) 0.390816 ( 0.010617) 0.004983 0.391218 --->plink-------germline2: 3.96e-18 -0.226189 1.78e-132 -0.226197 0.005167 ( 0.001068) 0.231364 ( 0.010898) 0.004983 0.231177 --->plink-------dash-----: 3.96e-18 -0.981905 4.82e-270 -0.981956 0.005167 ( 0.001068) 0.987123 ( 0.001571) 0.004983 0.987116 --->germline1---germline2: 3.96e-18 0.159535 1.46e-148 0.159452 0.390816 ( 0.010617) 0.231364 ( 0.010898) 0.391218 0.231177 --->germline1---dash-----: 3.96e-18 -0.596525 9.87e-176 -0.596307 0.390816 ( 0.010617) 0.987123 ( 0.001571) 0.391218 0.987116 --->germline2---dash-----: 3.96e-18 -0.755797 3.38e-184 -0.755759 0.231364 ( 0.010898) 0.987123 ( 0.001571) 0.231177 0.987116 ######FDR###### --->fabia-------beagle1--: 3.96e-18 -0.838347 2.12e-90 -0.835078 0.113615 ( 0.105770) 0.948693 ( 0.019231) 0.054185 0.950328 --->fabia-------beagle2--: 3.96e-18 -0.741635 2.76e-71 -0.735533 0.113615 ( 0.105770) 0.849148 ( 0.103463) 0.054185 0.872041 --->fabia-------plink----: 3.96e-18 -0.306204 1.5e-44 -0.301136 0.113615 ( 0.105770) 0.414751 ( 0.048536) 0.054185 0.409103 --->fabia-------germline1: 3.96e-18 -0.876693 4.01e-93 -0.872633 0.113615 ( 0.105770) 0.986248 ( 0.001415) 0.054185 0.986000 --->fabia-------germline2: 3.96e-18 -0.876051 3.64e-93 -0.872005 0.113615 ( 0.105770) 0.985620 ( 0.002810) 0.054185 0.985434 --->fabia-------dash-----: 3.96e-18 -0.505318 1.88e-69 -0.501314 0.113615 ( 0.105770) 0.614929 ( 0.012744) 0.054185 0.615022 --->beagle1-----beagle2--: 3.42e-16 0.082545 8.5e-16 0.099545 0.948693 ( 0.019231) 0.849148 ( 0.103463) 0.950328 0.872041 --->beagle1-----plink----: 3.96e-18 0.533941 1.41e-103 0.533941 0.948693 ( 0.019231) 0.414751 ( 0.048536) 0.950328 0.409103 --->beagle1-----germline1: 4.46e-18 -0.036834 7.56e-36 -0.037555 0.948693 ( 0.019231) 0.986248 ( 0.001415) 0.950328 0.986000 --->beagle1-----germline2: 5.35e-18 -0.036398 9.97e-35 -0.036927 0.948693 ( 0.019231) 0.985620 ( 0.002810) 0.950328 0.985434 --->beagle1-----dash-----: 3.96e-18 0.334466 3.15e-117 0.333764 0.948693 ( 0.019231) 0.614929 ( 0.012744) 0.950328 0.615022 --->beagle2-----plink----: 4.2e-18 0.445795 5.35e-58 0.434397 0.849148 ( 0.103463) 0.414751 ( 0.048536) 0.872041 0.409103 --->beagle2-----germline1: 1.17e-17 -0.122530 1.36e-23 -0.137100 0.849148 ( 0.103463) 0.986248 ( 0.001415) 0.872041 0.986000 --->beagle2-----germline2: 1.2e-17 -0.122376 1.6e-23 -0.136472 0.849148 ( 0.103463) 0.985620 ( 0.002810) 0.872041 0.985434 --->beagle2-----dash-----: 1.07e-17 0.248814 1.84e-41 0.234219 0.849148 ( 0.103463) 0.614929 ( 0.012744) 0.872041 0.615022 --->plink-------germline1: 3.96e-18 -0.572315 2.63e-108 -0.571497 0.414751 ( 0.048536) 0.986248 ( 0.001415) 0.409103 0.986000 --->plink-------germline2: 3.96e-18 -0.571497 1.68e-107 -0.570868 0.414751 ( 0.048536) 0.985620 ( 0.002810) 0.409103 0.985434 --->plink-------dash-----: 3.96e-18 -0.200423 7.76e-62 -0.200178 0.414751 ( 0.048536) 0.614929 ( 0.012744) 0.409103 0.615022 --->germline1---germline2: 7.21e-03 0.000657 6.07e-03 0.000628 0.986248 ( 0.001415) 0.985620 ( 0.002810) 0.986000 0.985434 --->germline1---dash-----: 3.96e-18 0.371115 5.16e-146 0.371319 0.986248 ( 0.001415) 0.614929 ( 0.012744) 0.986000 0.615022 --->germline2---dash-----: 3.96e-18 0.370682 1.54e-146 0.370691 0.985620 ( 0.002810) 0.614929 ( 0.012744) 0.985434 0.615022 ######specifity###### --->fabia-------beagle1--: 3.96e-18 0.040509 2.66e-55 0.041087 0.999583 ( 0.000440) 0.958497 ( 0.012461) 0.999836 0.960506 --->fabia-------beagle2--: 7.01e-18 0.005182 5.06e-23 0.005580 0.999583 ( 0.000440) 0.994003 ( 0.004310) 0.999836 0.994709 --->fabia-------plink----: 3.96e-18 0.004721 9.76e-63 0.004750 0.999583 ( 0.000440) 0.994833 ( 0.001068) 0.999836 0.995017 --->fabia-------germline1: 3.96e-18 0.390294 4.54e-157 0.390399 0.999583 ( 0.000440) 0.609184 ( 0.010617) 0.999836 0.608782 --->fabia-------germline2: 3.96e-18 0.230977 1.32e-133 0.230948 0.999583 ( 0.000440) 0.768636 ( 0.010898) 0.999836 0.768823 --->fabia-------dash-----: 3.96e-18 0.307269 6.91e-60 0.307507 0.999583 ( 0.000440) 0.692077 ( 0.082914) 0.999836 0.690283 --->beagle1-----beagle2--: 3.96e-18 -0.034740 2.95e-52 -0.035506 0.958497 ( 0.012461) 0.994003 ( 0.004310) 0.960506 0.994709 --->beagle1-----plink----: 3.96e-18 -0.035782 8.02e-51 -0.036336 0.958497 ( 0.012461) 0.994833 ( 0.001068) 0.960506 0.995017 --->beagle1-----germline1: 3.96e-18 0.349448 6.76e-133 0.349313 0.958497 ( 0.012461) 0.609184 ( 0.010617) 0.960506 0.608782 --->beagle1-----germline2: 3.96e-18 0.190344 7.17e-107 0.189861 0.958497 ( 0.012461) 0.768636 ( 0.010898) 0.960506 0.768823 --->beagle1-----dash-----: 3.96e-18 0.266007 9.59e-54 0.266420 0.958497 ( 0.012461) 0.692077 ( 0.082914) 0.960506 0.690283 --->beagle2-----plink----: 3.82e-01 -0.000395 7.58e-02 -0.000830 0.994003 ( 0.004310) 0.994833 ( 0.001068) 0.994709 0.995017 --->beagle2-----germline1: 3.96e-18 0.384755 4.7e-150 0.384819 0.994003 ( 0.004310) 0.609184 ( 0.010617) 0.994709 0.608782 --->beagle2-----germline2: 3.96e-18 0.225433 2.53e-127 0.225367 0.994003 ( 0.004310) 0.768636 ( 0.010898) 0.994709 0.768823 --->beagle2-----dash-----: 3.96e-18 0.301471 5.98e-59 0.301926 0.994003 ( 0.004310) 0.692077 ( 0.082914) 0.994709 0.690283 --->plink-------germline1: 3.96e-18 0.385475 1.27e-156 0.385649 0.994833 ( 0.001068) 0.609184 ( 0.010617) 0.995017 0.608782 --->plink-------germline2: 3.96e-18 0.226199 1.78e-132 0.226197 0.994833 ( 0.001068) 0.768636 ( 0.010898) 0.995017 0.768823 --->plink-------dash-----: 3.96e-18 0.302342 3.14e-59 0.302756 0.994833 ( 0.001068) 0.692077 ( 0.082914) 0.995017 0.690283 --->germline1---germline2: 3.96e-18 -0.159570 1.46e-148 -0.159452 0.609184 ( 0.010617) 0.768636 ( 0.010898) 0.608782 0.768823 --->germline1---dash-----: 6.75e-13 -0.082435 2.5e-16 -0.082893 0.609184 ( 0.010617) 0.692077 ( 0.082914) 0.608782 0.690283 --->germline2---dash-----: 7e-12 0.076411 1.6e-14 0.076559 0.768636 ( 0.010898) 0.692077 ( 0.082914) 0.768823 0.690283 ######sensitivity###### --->fabia-------beagle1--: 3.96e-18 0.475315 2.23e-50 0.466484 0.772523 ( 0.097898) 0.306039 ( 0.127464) 0.805710 0.300137 --->fabia-------beagle2--: 3.96e-18 0.672812 2.3e-73 0.661801 0.772523 ( 0.097898) 0.110722 ( 0.078475) 0.805710 0.101828 --->fabia-------plink----: 3.96e-18 -0.209941 9.54e-41 -0.215588 0.772523 ( 0.097898) 0.988110 ( 0.014201) 0.805710 0.991629 --->fabia-------germline1: 2.65e-02 0.027332 6.46e-02 0.021786 0.772523 ( 0.097898) 0.750736 ( 0.073256) 0.805710 0.753208 --->fabia-------germline2: 4.89e-18 0.312411 1.88e-39 0.307397 0.772523 ( 0.097898) 0.465126 ( 0.091947) 0.805710 0.458639 --->fabia-------dash-----: 3.96e-18 -610720 1.25e-168 -610500 0.773 ( 0.0979) 610501 ( 12677) 0.806 610563 --->beagle1-----beagle2--: 3.96e-18 0.192647 1.54e-38 0.195317 0.306039 ( 0.127464) 0.110722 ( 0.078475) 0.300137 0.101828 --->beagle1-----plink----: 3.96e-18 -0.682253 1.57e-74 -0.682071 0.306039 ( 0.127464) 0.988110 ( 0.014201) 0.300137 0.991629 --->beagle1-----germline1: 3.96e-18 -0.443668 3.04e-52 -0.444697 0.306039 ( 0.127464) 0.750736 ( 0.073256) 0.300137 0.753208 --->beagle1-----germline2: 1.42e-13 -0.156095 9.96e-17 -0.159087 0.306039 ( 0.127464) 0.465126 ( 0.091947) 0.300137 0.458639 --->beagle1-----dash-----: 3.96e-18 -610721 1.25e-168 -610501 0.306 ( 0.127) 610501 ( 12677) 0.3 610563 --->beagle2-----plink----: 3.96e-18 -0.882346 1.55e-105 -0.877389 0.110722 ( 0.078475) 0.988110 ( 0.014201) 0.101828 0.991629 --->beagle2-----germline1: 3.96e-18 -0.643907 6.6e-79 -0.640015 0.110722 ( 0.078475) 0.750736 ( 0.073256) 0.101828 0.753208 --->beagle2-----germline2: 5.19e-18 -0.357977 9.34e-48 -0.354404 0.110722 ( 0.078475) 0.465126 ( 0.091947) 0.101828 0.458639 --->beagle2-----dash-----: 3.96e-18 -610723 1.25e-168 -610501 0.111 ( 0.0785) 610501 ( 12677) 0.102 610563 --->plink-------germline1: 3.96e-18 0.234643 5.97e-55 0.237374 0.988110 ( 0.014201) 0.750736 ( 0.073256) 0.991629 0.753208 --->plink-------germline2: 3.96e-18 0.522768 3.07e-77 0.522984 0.988110 ( 0.014201) 0.465126 ( 0.091947) 0.991629 0.458639 --->plink-------dash-----: 3.96e-18 -610722 1.25e-168 -610500 0.988 ( 0.0142) 610501 ( 12677) 0.992 610563 --->germline1---germline2: 3.96e-18 0.283067 8.07e-60 0.285610 0.750736 ( 0.073256) 0.465126 ( 0.091947) 0.753208 0.458639 --->germline1---dash-----: 3.96e-18 -610722 1.25e-168 -610500 0.751 ( 0.0733) 610501 ( 12677) 0.753 610563 --->germline2---dash-----: 3.96e-18 -610722 1.25e-168 -610501 0.465 ( 0.0919) 610501 ( 12677) 0.459 610563 ######trueN###### --->fabia-------beagle1--: 3.96e-18 1039616 9.56e-193 1040216 1991810 ( 878) 951594 ( 12391) 1992215 953570 --->fabia-------beagle2--: 3.96e-18 1e+06 1.2e-236 1e+06 1991810 ( 878) 986845 ( 4256) 1992215 987550 --->fabia-------plink----: 3.96e-18 1e+06 7.69e-283 1e+06 1991810 ( 878) 987669 ( 1099) 1992215 987798 --->fabia-------germline1: 3.96e-18 1386877 8.73e-212 1387013 1991810 ( 878) 604797 ( 10559) 1992215 604426 --->fabia-------germline2: 3.96e-18 1228730 7.57e-206 1228709 1991810 ( 878) 763101 ( 10853) 1992215 763256 --->fabia-------dash-----: 3.96e-18 1609640 2.7e-210 1609513 1991810 ( 878) 382297 ( 12636) 1992215 382168 --->beagle1-----beagle2--: 3.96e-18 -34466 2.93e-52 -35250 951594 ( 12391) 986845 ( 4256) 953570 987550 --->beagle1-----plink----: 3.96e-18 -35515 7.99e-51 -36074 951594 ( 12391) 987669 ( 1099) 953570 987798 --->beagle1-----germline1: 3.96e-18 346937 6.71e-133 346797 951594 ( 12391) 604797 ( 10559) 953570 604426 --->beagle1-----germline2: 3.96e-18 188948 7.05e-107 188494 951594 ( 12391) 763101 ( 10853) 953570 763256 --->beagle1-----dash-----: 3.96e-18 569796 1.16e-151 569297 951594 ( 12391) 382297 ( 12636) 953570 382168 --->beagle2-----plink----: 3.81e-01 -378 7.58e-02 -824 986845 ( 4256) 987669 ( 1099) 987550 987798 --->beagle2-----germline1: 3.96e-18 381994 4.23e-150 382047 986845 ( 4256) 604797 ( 10559) 987550 604426 --->beagle2-----germline2: 3.96e-18 223826 2.32e-127 223744 986845 ( 4256) 763101 ( 10853) 987550 763256 --->beagle2-----dash-----: 3.96e-18 604654 5.56e-170 604547 986845 ( 4256) 382297 ( 12636) 987550 382168 --->plink-------germline1: 3.96e-18 382708 1.16e-156 382871 987669 ( 1099) 604797 ( 10559) 987798 604426 --->plink-------germline2: 3.96e-18 224556 1.63e-132 224568 987669 ( 1099) 763101 ( 10853) 987798 763256 --->plink-------dash-----: 3.96e-18 605568 8.97e-168 605371 987669 ( 1099) 382297 ( 12636) 987798 382168 --->germline1---germline2: 3.96e-18 -158408 1.6e-148 -158303 604797 ( 10559) 763101 ( 10853) 604426 763256 --->germline1---dash-----: 3.96e-18 222672 1.85e-100 222500 604797 ( 10559) 382297 ( 12636) 604426 382168 --->germline2---dash-----: 3.96e-18 380900 1.08e-123 380803 763101 ( 10853) 382297 ( 12636) 763256 382168 ######falseP###### --->fabia-------beagle1--: 3.96e-18 -39791 5.85e-55 -40374 830 ( 876) 41204 ( 12370) 326 39209 --->fabia-------beagle2--: 6.44e-17 -4773 1.08e-20 -5124 830 ( 876) 5954 ( 4279) 326 5253 --->fabia-------plink----: 3.96e-18 -4312 2.32e-51 -4300 830 ( 876) 5130 ( 1060) 326 4947 --->fabia-------germline1: 3.96e-18 -387033 5.04e-157 -387171 830 ( 876) 388001 ( 10529) 326 388444 --->fabia-------germline2: 3.96e-18 -228863 9.96e-134 -228867 830 ( 876) 229698 ( 10809) 326 229498 --->fabia-------dash-----: 6.38e-16 -1411 2.57e-24 -1385 830 ( 876) 2215 ( 588) 326 2198 --->beagle1-----beagle2--: 3.96e-18 34466 2.93e-52 35250 41204 ( 12370) 5954 ( 4279) 39209 5253 --->beagle1-----plink----: 3.96e-18 35516 7.99e-51 36074 41204 ( 12370) 5130 ( 1060) 39209 4947 --->beagle1-----germline1: 3.96e-18 -346940 6.71e-133 -346797 41204 ( 12370) 388001 ( 10529) 39209 388444 --->beagle1-----germline2: 3.96e-18 -188950 7.05e-107 -188494 41204 ( 12370) 229698 ( 10809) 39209 229498 --->beagle1-----dash-----: 3.96e-18 38385 2.13e-53 38989 41204 ( 12370) 2215 ( 588) 39209 2198 --->beagle2-----plink----: 3.81e-01 378 7.58e-02 824 5954 ( 4279) 5130 ( 1060) 5253 4947 --->beagle2-----germline1: 3.96e-18 -381988 4.23e-150 -382047 5954 ( 4279) 388001 ( 10529) 5253 388444 --->beagle2-----germline2: 3.96e-18 -223826 2.32e-127 -223744 5954 ( 4279) 229698 ( 10809) 5253 229498 --->beagle2-----dash-----: 1.54e-12 3348 1.45e-13 3739 5954 ( 4279) 2215 ( 588) 5253 2198 --->plink-------germline1: 3.96e-18 -382709 1.16e-156 -382871 5130 ( 1060) 388001 ( 10529) 4947 388444 --->plink-------germline2: 3.96e-18 -224556 1.63e-132 -224568 5130 ( 1060) 229698 ( 10809) 4947 229498 --->plink-------dash-----: 3.96e-18 2916 7.99e-43 2915 5130 ( 1060) 2215 ( 588) 4947 2198 --->germline1---germline2: 3.96e-18 158408 1.6e-148 158303 388001 ( 10529) 229698 ( 10809) 388444 229498 --->germline1---dash-----: 3.96e-18 385641 1.09e-156 385786 388001 ( 10529) 2215 ( 588) 388444 2198 --->germline2---dash-----: 3.96e-18 227488 9.26e-133 227483 229698 ( 10809) 2215 ( 588) 229498 2198 ######falseN###### --->fabia-------beagle1--: 4.08e-18 -3395 3.32e-49 -3327 1671 ( 712) 4998 ( 930) 1455 5037 --->fabia-------beagle2--: 3.96e-18 -4807 7.79e-71 -4736 1671 ( 712) 6407 ( 615) 1455 6482 --->fabia-------plink----: 3.96e-18 1541 4.42e-41 1585 1671 ( 712) 85.5 ( 102) 1455 61 --->fabia-------germline1: 7.19e-02 -163 1.51e-01 -124 1671 ( 712) 1795 ( 524) 1455 1772 --->fabia-------germline2: 6.6e-18 -2216 1.99e-38 -2178 1671 ( 712) 3849 ( 653) 1455 3892 --->fabia-------dash-----: 3.96e-18 -3355 6.72e-56 -3316 1671 ( 712) 4986 ( 626) 1455 5008 --->beagle1-----beagle2--: 3.96e-18 -1386 3.9e-38 -1409 4998 ( 930) 6407 ( 615) 5037 6482 --->beagle1-----plink----: 3.96e-18 4914 5.5e-74 4913 4998 ( 930) 85.5 ( 102) 5037 61 --->beagle1-----germline1: 3.96e-18 3193 3.9e-52 3203 4998 ( 930) 1795 ( 524) 5037 1772 --->beagle1-----germline2: 1.39e-13 1126 1.04e-16 1149 4998 ( 930) 3849 ( 653) 5037 3892 --->beagle1-----dash-----: 9.4e-01 12.8 9.17e-01 11.8 4998 ( 930) 4986 ( 626) 5037 5008 --->beagle2-----plink----: 3.96e-18 6360 5.49e-102 6322 6407 ( 615) 85.5 ( 102) 6482 61 --->beagle2-----germline1: 3.96e-18 4639 1.02e-77 4612 6407 ( 615) 1795 ( 524) 6482 1772 --->beagle2-----germline2: 5.35e-18 2579 3.57e-47 2558 6407 ( 615) 3849 ( 653) 6482 3892 --->beagle2-----dash-----: 2.17e-17 1446 4.67e-32 1421 6407 ( 615) 4986 ( 626) 6482 5008 --->plink-------germline1: 3.96e-18 -1691 3.73e-55 -1709 85.5 ( 102) 1795 ( 524) 61 1772 --->plink-------germline2: 3.96e-18 -3762 9.16e-78 -3764 85.5 ( 102) 3849 ( 653) 61 3892 --->plink-------dash-----: 3.96e-18 -4908 2.42e-89 -4901 85.5 ( 102) 4986 ( 626) 61 5008 --->germline1---germline2: 3.96e-18 -2045 1.3e-60 -2054 1795 ( 524) 3849 ( 653) 1772 3892 --->germline1---dash-----: 3.96e-18 -3209 1.05e-50 -3192 1795 ( 524) 4986 ( 626) 1772 5008 --->germline2---dash-----: 4.18e-13 -1118 2.26e-16 -1137 3849 ( 653) 4986 ( 626) 3892 5008 ######trueP###### --->fabia-------beagle1--: 3.96e-18 3547 3.04e-51 3486 5689 ( 753) 2203 ( 919) 5950 2206 --->fabia-------beagle2--: 3.96e-18 4980 4.97e-73 4894 5689 ( 753) 794 ( 559) 5950 731 --->fabia-------plink----: 3.96e-18 -1378 2.1e-36 -1427 5689 ( 753) 7116 ( 204) 5950 7114 --->fabia-------germline1: 5.46e-04 331 1.22e-03 282 5689 ( 753) 5407 ( 541) 5950 5428 --->fabia-------germline2: 4.74e-18 2375 1.02e-40 2336 5689 ( 753) 3352 ( 682) 5950 3322 --->fabia-------dash-----: 3.96e-18 5735 2.35e-89 5689 5689 ( 753) 0.00133 ( 0.00464) 5950 0 --->beagle1-----beagle2--: 3.96e-18 1386 3.9e-38 1409 2203 ( 919) 794 ( 559) 2206 731 --->beagle1-----plink----: 3.96e-18 -4914 5.5e-74 -4913 2203 ( 919) 7116 ( 204) 2206 7114 --->beagle1-----germline1: 3.96e-18 -3193 3.9e-52 -3203 2203 ( 919) 5407 ( 541) 2206 5428 --->beagle1-----germline2: 1.39e-13 -1126 1.04e-16 -1149 2203 ( 919) 3352 ( 682) 2206 3322 --->beagle1-----dash-----: 3.96e-18 2199 5.2e-43 2203 2203 ( 919) 0.00133 ( 0.00464) 2206 0 --->beagle2-----plink----: 3.96e-18 -6360 5.49e-102 -6322 794 ( 559) 7116 ( 204) 731 7114 --->beagle2-----germline1: 3.96e-18 -4639 1.02e-77 -4612 794 ( 559) 5407 ( 541) 731 5428 --->beagle2-----germline2: 5.35e-18 -2579 3.57e-47 -2558 794 ( 559) 3352 ( 682) 731 3322 --->beagle2-----dash-----: 5.66e-17 817 1.16e-25 794 794 ( 559) 0.00133 ( 0.00464) 731 0 --->plink-------germline1: 3.96e-18 1691 3.73e-55 1709 7116 ( 204) 5407 ( 541) 7114 5428 --->plink-------germline2: 3.96e-18 3762 9.16e-78 3764 7116 ( 204) 3352 ( 682) 7114 3322 --->plink-------dash-----: 3.95e-18 7127 7.76e-155 7116 7116 ( 204) 0.00133 ( 0.00464) 7114 0 --->germline1---germline2: 3.96e-18 2045 1.3e-60 2054 5407 ( 541) 3352 ( 682) 5428 3322 --->germline1---dash-----: 3.96e-18 5430 3.44e-101 5407 5407 ( 541) 0.00133 ( 0.00464) 5428 0 --->germline2---dash-----: 3.96e-18 3349 2.23e-71 3352 3352 ( 682) 0.00133 ( 0.00464) 3322 0 ######MatthewsSnps###### --->fabia-------beagle1--: 3.96e-18 0.677272 4.14e-82 0.678130 0.763755 ( 0.081248) 0.085625 ( 0.080296) 0.779721 0.086090 --->fabia-------beagle2--: 3.96e-18 0.573551 1.71e-55 0.573432 0.763755 ( 0.081248) 0.190323 ( 0.145748) 0.779721 0.189017 --->fabia-------plink----: 4.18e-16 0.137723 8.05e-24 0.136984 0.763755 ( 0.081248) 0.626771 ( 0.064836) 0.779721 0.632626 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.763755 ( 0.081248) 0.000000 ( 0.000000) 0.779721 0.000000 --->fabia-------germline2: 3.96e-18 0.767443 3.07e-98 0.761676 0.763755 ( 0.081248) 0.002079 ( 0.006591) 0.779721 0.000000 --->fabia-------dash-----: 3.96e-18 0.593674 3.34e-86 0.588520 0.763755 ( 0.081248) 0.175236 ( 0.011533) 0.779721 0.181818 --->beagle1-----beagle2--: 1.84e-08 -0.101895 1.43e-09 -0.104698 0.085625 ( 0.080296) 0.190323 ( 0.145748) 0.086090 0.189017 --->beagle1-----plink----: 3.96e-18 -0.540296 6.08e-77 -0.541146 0.085625 ( 0.080296) 0.626771 ( 0.064836) 0.086090 0.632626 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.085625 ( 0.080296) 0.000000 ( 0.000000) 0.086090 0.000000 --->beagle1-----germline2: 2.53e-13 0.088300 1.33e-17 0.083546 0.085625 ( 0.080296) 0.002079 ( 0.006591) 0.086090 0.000000 --->beagle1-----dash-----: 6.37e-15 -0.086474 1.32e-18 -0.089611 0.085625 ( 0.080296) 0.175236 ( 0.011533) 0.086090 0.181818 --->beagle2-----plink----: 3.96e-18 -0.439121 1.49e-47 -0.436448 0.190323 ( 0.145748) 0.626771 ( 0.064836) 0.189017 0.632626 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.190323 ( 0.145748) 0.000000 ( 0.000000) 0.189017 0.000000 --->beagle2-----germline2: 8.22e-16 0.190136 7.99e-23 0.188244 0.190323 ( 0.145748) 0.002079 ( 0.006591) 0.189017 0.000000 --->beagle2-----dash-----: 3.16e-01 0.016200 3.08e-01 0.015087 0.190323 ( 0.145748) 0.175236 ( 0.011533) 0.189017 0.181818 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.626771 ( 0.064836) 0.000000 ( 0.000000) 0.632626 0.000000 --->plink-------germline2: 3.96e-18 0.625314 4.42e-99 0.624692 0.626771 ( 0.064836) 0.002079 ( 0.006591) 0.632626 0.000000 --->plink-------dash-----: 3.96e-18 0.451771 7.73e-87 0.451536 0.626771 ( 0.064836) 0.175236 ( 0.011533) 0.632626 0.181818 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.002079 ( 0.006591) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.175236 ( 0.011533) 0.000000 0.181818 --->germline2---dash-----: 1.09e-18 -0.176295 3.09e-110 -0.173156 0.002079 ( 0.006591) 0.175236 ( 0.011533) 0.000000 0.181818 ######F1Snps###### --->fabia-------beagle1--: 3.96e-18 0.584904 1.38e-88 0.580760 0.774384 ( 0.075621) 0.193624 ( 0.024970) 0.783157 0.192162 --->fabia-------beagle2--: 3.96e-18 0.509461 1.89e-60 0.505129 0.774384 ( 0.075621) 0.269255 ( 0.106366) 0.783157 0.261363 --->fabia-------plink----: 4.28e-17 0.152062 5.51e-27 0.152108 0.774384 ( 0.075621) 0.622276 ( 0.070722) 0.783157 0.627521 --->fabia-------germline1: 3.96e-18 0.603596 7.49e-90 0.599183 0.774384 ( 0.075621) 0.175201 ( 0.011528) 0.783157 0.181818 --->fabia-------germline2: 3.96e-18 0.603534 7.66e-90 0.599111 0.774384 ( 0.075621) 0.175273 ( 0.011510) 0.783157 0.181818 --->fabia-------dash-----: 3.96e-18 0.682791 8.58e-96 0.678115 0.774384 ( 0.075621) 0.096269 ( 0.006905) 0.783157 0.100000 --->beagle1-----beagle2--: 3.38e-09 -0.072871 1.6e-10 -0.075631 0.193624 ( 0.024970) 0.269255 ( 0.106366) 0.192162 0.261363 --->beagle1-----plink----: 3.96e-18 -0.428459 4.97e-81 -0.428652 0.193624 ( 0.024970) 0.622276 ( 0.070722) 0.192162 0.627521 --->beagle1-----germline1: 7.52e-12 0.016295 1.53e-11 0.018423 0.193624 ( 0.024970) 0.175201 ( 0.011528) 0.192162 0.181818 --->beagle1-----germline2: 8.28e-12 0.016241 1.74e-11 0.018351 0.193624 ( 0.024970) 0.175273 ( 0.011510) 0.192162 0.181818 --->beagle1-----dash-----: 3.96e-18 0.095826 1.01e-63 0.097355 0.193624 ( 0.024970) 0.096269 ( 0.006905) 0.192162 0.100000 --->beagle2-----plink----: 4.08e-18 -0.359774 3.14e-48 -0.353021 0.269255 ( 0.106366) 0.622276 ( 0.070722) 0.261363 0.627521 --->beagle2-----germline1: 5.24e-12 0.090677 5.49e-14 0.094053 0.269255 ( 0.106366) 0.175201 ( 0.011528) 0.261363 0.181818 --->beagle2-----germline2: 5.5e-12 0.090570 5.73e-14 0.093982 0.269255 ( 0.106366) 0.175273 ( 0.011510) 0.261363 0.181818 --->beagle2-----dash-----: 1.2e-17 0.168996 1.33e-29 0.172986 0.269255 ( 0.106366) 0.096269 ( 0.006905) 0.261363 0.100000 --->plink-------germline1: 3.96e-18 0.447714 3.54e-83 0.447075 0.622276 ( 0.070722) 0.175201 ( 0.011528) 0.627521 0.181818 --->plink-------germline2: 3.96e-18 0.447663 3.68e-83 0.447003 0.622276 ( 0.070722) 0.175273 ( 0.011510) 0.627521 0.181818 --->plink-------dash-----: 3.96e-18 0.527078 1.31e-89 0.526007 0.622276 ( 0.070722) 0.096269 ( 0.006905) 0.627521 0.100000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.175201 ( 0.011528) 0.175273 ( 0.011510) 0.181818 0.181818 --->germline1---dash-----: 6.38e-19 0.080301 3.88e-123 0.078932 0.175201 ( 0.011528) 0.096269 ( 0.006905) 0.181818 0.100000 --->germline2---dash-----: 1.09e-18 0.080302 2.88e-123 0.079004 0.175273 ( 0.011510) 0.096269 ( 0.006905) 0.181818 0.100000 ######accuracySnps###### --->fabia-------beagle1--: 3.96e-18 0.718086 7.86e-86 0.712658 0.960116 ( 0.015020) 0.247458 ( 0.102551) 0.963350 0.236250 --->fabia-------beagle2--: 3.96e-18 0.205770 2.03e-34 0.211750 0.960116 ( 0.015020) 0.748366 ( 0.111119) 0.963350 0.766950 --->fabia-------plink----: 3.96e-18 0.078212 3.43e-38 0.079832 0.960116 ( 0.015020) 0.880284 ( 0.035071) 0.963350 0.884150 --->fabia-------germline1: 3.96e-18 0.864603 1.53e-168 0.864062 0.960116 ( 0.015020) 0.096054 ( 0.006844) 0.963350 0.100000 --->fabia-------germline2: 3.96e-18 0.864150 1.24e-168 0.863605 0.960116 ( 0.015020) 0.096511 ( 0.006851) 0.963350 0.100000 --->fabia-------dash-----: 3.96e-18 0.776842 1.76e-172 0.775681 0.960116 ( 0.015020) 0.184435 ( 0.001409) 0.963350 0.183673 --->beagle1-----beagle2--: 3.96e-18 -0.504429 1.07e-56 -0.500908 0.247458 ( 0.102551) 0.748366 ( 0.111119) 0.236250 0.766950 --->beagle1-----plink----: 3.96e-18 -0.637803 1.86e-81 -0.632826 0.247458 ( 0.102551) 0.880284 ( 0.035071) 0.236250 0.884150 --->beagle1-----germline1: 4.33e-18 0.144829 1.14e-26 0.151404 0.247458 ( 0.102551) 0.096054 ( 0.006844) 0.236250 0.100000 --->beagle1-----germline2: 4.33e-18 0.144657 1.42e-26 0.150947 0.247458 ( 0.102551) 0.096511 ( 0.006851) 0.236250 0.100000 --->beagle1-----dash-----: 3.09e-07 0.057776 1.67e-08 0.063023 0.247458 ( 0.102551) 0.184435 ( 0.001409) 0.236250 0.183673 --->beagle2-----plink----: 4.35e-15 -0.125535 1.63e-18 -0.131918 0.748366 ( 0.111119) 0.880284 ( 0.035071) 0.766950 0.884150 --->beagle2-----germline1: 3.96e-18 0.659915 5.03e-79 0.652312 0.748366 ( 0.111119) 0.096054 ( 0.006844) 0.766950 0.100000 --->beagle2-----germline2: 3.96e-18 0.659396 5.51e-79 0.651855 0.748366 ( 0.111119) 0.096511 ( 0.006851) 0.766950 0.100000 --->beagle2-----dash-----: 3.96e-18 0.570653 1.32e-72 0.563931 0.748366 ( 0.111119) 0.184435 ( 0.001409) 0.766950 0.183673 --->plink-------germline1: 3.96e-18 0.785503 2.79e-135 0.784230 0.880284 ( 0.035071) 0.096054 ( 0.006844) 0.884150 0.100000 --->plink-------germline2: 3.96e-18 0.784990 3.46e-135 0.783773 0.880284 ( 0.035071) 0.096511 ( 0.006851) 0.884150 0.100000 --->plink-------dash-----: 3.96e-18 0.697991 1.94e-130 0.695849 0.880284 ( 0.035071) 0.184435 ( 0.001409) 0.884150 0.183673 --->germline1---germline2: 1e+00 0.000000 6.79e-03 -0.000457 0.096054 ( 0.006844) 0.096511 ( 0.006851) 0.100000 0.100000 --->germline1---dash-----: 6.38e-19 -0.085914 3.33e-104 -0.088381 0.096054 ( 0.006844) 0.184435 ( 0.001409) 0.100000 0.183673 --->germline2---dash-----: 1.09e-18 -0.085448 3.89e-104 -0.087924 0.096511 ( 0.006851) 0.184435 ( 0.001409) 0.100000 0.183673 ######FPRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.151221 2.38e-85 -0.149882 0.002381 ( 0.002927) 0.152263 ( 0.021865) 0.000929 0.153551 --->fabia-------beagle2--: 4.46e-18 -0.037533 5.98e-28 -0.038499 0.002381 ( 0.002927) 0.040880 ( 0.025022) 0.000929 0.037214 --->fabia-------plink----: 3.96e-18 -0.021700 4.5e-48 -0.021998 0.002381 ( 0.002927) 0.024379 ( 0.007177) 0.000929 0.023571 --->fabia-------germline1: 3.71e-18 -0.182368 8.21e-176 -0.182098 0.002381 ( 0.002927) 0.184479 ( 0.001397) 0.000929 0.183673 --->fabia-------germline2: 3.78e-18 -0.182267 3.38e-176 -0.182004 0.002381 ( 0.002927) 0.184386 ( 0.001398) 0.000929 0.183673 --->fabia-------dash-----: 3.74e-18 -0.900058 8.77e-209 -0.901544 0.002381 ( 0.002927) 0.903925 ( 0.006847) 0.000929 0.900000 --->beagle1-----beagle2--: 3.96e-18 0.112654 1.78e-57 0.111383 0.152263 ( 0.021865) 0.040880 ( 0.025022) 0.153551 0.037214 --->beagle1-----plink----: 3.96e-18 0.128988 3.18e-79 0.127884 0.152263 ( 0.021865) 0.024379 ( 0.007177) 0.153551 0.023571 --->beagle1-----germline1: 4.08e-18 -0.030819 1.2e-26 -0.032215 0.152263 ( 0.021865) 0.184479 ( 0.001397) 0.153551 0.183673 --->beagle1-----germline2: 4.08e-18 -0.030705 1.5e-26 -0.032122 0.152263 ( 0.021865) 0.184386 ( 0.001398) 0.153551 0.183673 --->beagle1-----dash-----: 3.96e-18 -0.749812 3.44e-152 -0.751662 0.152263 ( 0.021865) 0.903925 ( 0.006847) 0.153551 0.900000 --->beagle2-----plink----: 2.14e-07 0.015310 2.22e-08 0.016501 0.040880 ( 0.025022) 0.024379 ( 0.007177) 0.037214 0.023571 --->beagle2-----germline1: 3.96e-18 -0.144820 3.22e-78 -0.143598 0.040880 ( 0.025022) 0.184479 ( 0.001397) 0.037214 0.183673 --->beagle2-----germline2: 3.96e-18 -0.144729 3.49e-78 -0.143505 0.040880 ( 0.025022) 0.184386 ( 0.001398) 0.037214 0.183673 --->beagle2-----dash-----: 3.96e-18 -0.864477 3.89e-155 -0.863045 0.040880 ( 0.025022) 0.903925 ( 0.006847) 0.037214 0.900000 --->plink-------germline1: 3.96e-18 -0.160357 3.25e-135 -0.160100 0.024379 ( 0.007177) 0.184479 ( 0.001397) 0.023571 0.183673 --->plink-------germline2: 3.96e-18 -0.160240 4.03e-135 -0.160006 0.024379 ( 0.007177) 0.184386 ( 0.001398) 0.023571 0.183673 --->plink-------dash-----: 3.96e-18 -0.878811 4.87e-196 -0.879546 0.024379 ( 0.007177) 0.903925 ( 0.006847) 0.023571 0.900000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.184479 ( 0.001397) 0.184386 ( 0.001398) 0.183673 0.183673 --->germline1---dash-----: 6.38e-19 -0.717791 5.64e-212 -0.719446 0.184479 ( 0.001397) 0.903925 ( 0.006847) 0.183673 0.900000 --->germline2---dash-----: 1.09e-18 -0.717880 1.37e-211 -0.719540 0.184386 ( 0.001398) 0.903925 ( 0.006847) 0.183673 0.900000 ######FDRSnps###### --->fabia-------beagle1--: 3.96e-18 -0.773431 6.99e-79 -0.770130 0.121594 ( 0.131091) 0.891724 ( 0.015089) 0.057751 0.892744 --->fabia-------beagle2--: 3.96e-18 -0.661568 4.12e-59 -0.652815 0.121594 ( 0.131091) 0.774409 ( 0.130038) 0.057751 0.810319 --->fabia-------plink----: 3.96e-18 -0.428389 7.74e-48 -0.422324 0.121594 ( 0.131091) 0.543918 ( 0.074841) 0.057751 0.541249 --->fabia-------germline1: 3.71e-18 -0.782732 1.85e-79 -0.782352 0.121594 ( 0.131091) 0.903946 ( 0.006844) 0.057751 0.900000 --->fabia-------germline2: 3.78e-18 -0.782673 1.85e-79 -0.782309 0.121594 ( 0.131091) 0.903903 ( 0.006835) 0.057751 0.900000 --->fabia-------dash-----: 3.8e-13 0.169977 4.21e-15 0.121550 0.121594 ( 0.131091) 4.39e-05 ( 0.000157) 0.057751 0.000000 --->beagle1-----beagle2--: 5.12e-15 0.098625 1.08e-14 0.117315 0.891724 ( 0.015089) 0.774409 ( 0.130038) 0.892744 0.810319 --->beagle1-----plink----: 3.96e-18 0.346296 2.66e-70 0.347806 0.891724 ( 0.015089) 0.543918 ( 0.074841) 0.892744 0.541249 --->beagle1-----germline1: 2.57e-13 -0.010826 2.49e-13 -0.012222 0.891724 ( 0.015089) 0.903946 ( 0.006844) 0.892744 0.900000 --->beagle1-----germline2: 2.71e-13 -0.010785 2.85e-13 -0.012179 0.891724 ( 0.015089) 0.903903 ( 0.006835) 0.892744 0.900000 --->beagle1-----dash-----: 3.96e-18 0.892246 1.93e-177 0.891680 0.891724 ( 0.015089) 4.39e-05 ( 0.000157) 0.892744 0.000000 --->beagle2-----plink----: 3.23e-16 0.239735 2.48e-27 0.230490 0.774409 ( 0.130038) 0.543918 ( 0.074841) 0.810319 0.541249 --->beagle2-----germline1: 3.73e-16 -0.111521 9.41e-17 -0.129537 0.774409 ( 0.130038) 0.903946 ( 0.006844) 0.810319 0.900000 --->beagle2-----germline2: 3.95e-16 -0.111442 9.64e-17 -0.129494 0.774409 ( 0.130038) 0.903903 ( 0.006835) 0.810319 0.900000 --->beagle2-----dash-----: 3.96e-18 0.793653 2.43e-79 0.774365 0.774409 ( 0.130038) 4.39e-05 ( 0.000157) 0.810319 0.000000 --->plink-------germline1: 3.96e-18 -0.359119 2.74e-71 -0.360028 0.543918 ( 0.074841) 0.903946 ( 0.006844) 0.541249 0.900000 --->plink-------germline2: 3.96e-18 -0.359119 2.81e-71 -0.359985 0.543918 ( 0.074841) 0.903903 ( 0.006835) 0.541249 0.900000 --->plink-------dash-----: 3.96e-18 0.544440 1.04e-87 0.543874 0.543918 ( 0.074841) 4.39e-05 ( 0.000157) 0.541249 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.903946 ( 0.006844) 0.903903 ( 0.006835) 0.900000 0.900000 --->germline1---dash-----: 6.38e-19 0.901895 5.75e-212 0.903902 0.903946 ( 0.006844) 4.39e-05 ( 0.000157) 0.900000 0.000000 --->germline2---dash-----: 1.09e-18 0.901736 5.02e-212 0.903859 0.903903 ( 0.006835) 4.39e-05 ( 0.000157) 0.900000 0.000000 ######specifitySnps###### --->fabia-------beagle1--: 3.96e-18 0.151210 2.38e-85 0.149882 0.182098 ( 0.003200) 0.032215 ( 0.021904) 0.183122 0.030327 --->fabia-------beagle2--: 4.46e-18 0.037531 5.98e-28 0.038499 0.182098 ( 0.003200) 0.143598 ( 0.024768) 0.183122 0.146990 --->fabia-------plink----: 3.96e-18 0.021706 4.5e-48 0.021998 0.182098 ( 0.003200) 0.160100 ( 0.007238) 0.183122 0.160643 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.182098 ( 0.003200) 0.000000 ( 0.000000) 0.183122 0.000000 --->fabia-------germline2: 3.78e-18 0.182261 3.38e-176 0.182004 0.182098 ( 0.003200) 9.33e-05 ( 0.000337) 0.183122 0.000000 --->fabia-------dash-----: 3.71e-18 -0.799921 6.71e-106 -0.778442 0.182098 ( 0.003200) 0.960540 ( 0.068439) 0.183122 1.000000 --->beagle1-----beagle2--: 3.96e-18 -0.112651 1.78e-57 -0.111383 0.032215 ( 0.021904) 0.143598 ( 0.024768) 0.030327 0.146990 --->beagle1-----plink----: 3.96e-18 -0.128974 3.18e-79 -0.127884 0.032215 ( 0.021904) 0.160100 ( 0.007238) 0.030327 0.160643 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.032215 ( 0.021904) 0.000000 ( 0.000000) 0.030327 0.000000 --->beagle1-----germline2: 4.08e-18 0.030680 1.5e-26 0.032122 0.032215 ( 0.021904) 9.33e-05 ( 0.000337) 0.030327 0.000000 --->beagle1-----dash-----: 3.96e-18 -0.944625 1.91e-111 -0.928325 0.032215 ( 0.021904) 0.960540 ( 0.068439) 0.030327 1.000000 --->beagle2-----plink----: 2.18e-07 -0.015310 2.22e-08 -0.016501 0.143598 ( 0.024768) 0.160100 ( 0.007238) 0.146990 0.160643 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.143598 ( 0.024768) 0.000000 ( 0.000000) 0.146990 0.000000 --->beagle2-----germline2: 3.96e-18 0.144744 3.49e-78 0.143505 0.143598 ( 0.024768) 9.33e-05 ( 0.000337) 0.146990 0.000000 --->beagle2-----dash-----: 3.96e-18 -0.829327 2.19e-108 -0.816942 0.143598 ( 0.024768) 0.960540 ( 0.068439) 0.146990 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.160100 ( 0.007238) 0.000000 ( 0.000000) 0.160643 0.000000 --->plink-------germline2: 3.96e-18 0.160236 4.03e-135 0.160006 0.160100 ( 0.007238) 9.33e-05 ( 0.000337) 0.160643 0.000000 --->plink-------dash-----: 3.96e-18 -0.820886 4.5e-107 -0.800440 0.160100 ( 0.007238) 0.960540 ( 0.068439) 0.160643 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 9.33e-05 ( 0.000337) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.960540 ( 0.068439) 0.000000 1.000000 --->germline2---dash-----: 6.39e-19 -0.981010 1.09e-115 -0.960447 9.33e-05 ( 0.000337) 0.960540 ( 0.068439) 0.000000 1.000000 ######sensitivitySnps###### --->fabia-------beagle1--: 2.38e-17 -0.223077 4.03e-30 -0.217650 0.678380 ( 0.093109) 0.896030 ( 0.116195) 0.684000 0.947000 --->fabia-------beagle2--: 1.5e-11 0.242039 2.62e-14 0.231040 0.678380 ( 0.093109) 0.447340 ( 0.228512) 0.684000 0.400000 --->fabia-------plink----: 3.95e-18 -0.270930 1.88e-49 -0.279580 0.678380 ( 0.093109) 0.957960 ( 0.067157) 0.684000 0.992500 --->fabia-------germline1: 3.95e-18 -0.273530 1.24e-49 -0.282160 0.678380 ( 0.093109) 0.960540 ( 0.068439) 0.684000 1.000000 --->fabia-------germline2: 3.95e-18 -0.273530 1.24e-49 -0.282160 0.678380 ( 0.093109) 0.960540 ( 0.068439) 0.684000 1.000000 --->fabia-------dash-----: 1.68e-09 0.663038 5.86e-02 -1.471620 0.678380 ( 0.093109) 2.150000 ( 7.695434) 0.684000 0.000000 --->beagle1-----beagle2--: 1.75e-17 0.474523 4.07e-34 0.448690 0.896030 ( 0.116195) 0.447340 ( 0.228512) 0.947000 0.400000 --->beagle1-----plink----: 4.85e-06 -0.098522 5.66e-08 -0.061930 0.896030 ( 0.116195) 0.957960 ( 0.067157) 0.947000 0.992500 --->beagle1-----germline1: 1.5e-07 -0.199961 1.97e-08 -0.064510 0.896030 ( 0.116195) 0.960540 ( 0.068439) 0.947000 1.000000 --->beagle1-----germline2: 1.5e-07 -0.199961 1.97e-08 -0.064510 0.896030 ( 0.116195) 0.960540 ( 0.068439) 0.947000 1.000000 --->beagle1-----dash-----: 1.32e-09 0.896541 1.07e-01 -1.253970 0.896030 ( 0.116195) 2.150000 ( 7.695434) 0.947000 0.000000 --->beagle2-----plink----: 8.77e-18 -0.511517 1.14e-37 -0.510620 0.447340 ( 0.228512) 0.957960 ( 0.067157) 0.400000 0.992500 --->beagle2-----germline1: 1.12e-17 -0.522433 7.64e-38 -0.513200 0.447340 ( 0.228512) 0.960540 ( 0.068439) 0.400000 1.000000 --->beagle2-----germline2: 1.12e-17 -0.522433 7.64e-38 -0.513200 0.447340 ( 0.228512) 0.960540 ( 0.068439) 0.400000 1.000000 --->beagle2-----dash-----: 2.26e-09 0.399945 2.85e-02 -1.702660 0.447340 ( 0.228512) 2.150000 ( 7.695434) 0.400000 0.000000 --->plink-------germline1: 1.21e-06 -0.007578 4.35e-06 -0.002580 0.957960 ( 0.067157) 0.960540 ( 0.068439) 0.992500 1.000000 --->plink-------germline2: 1.21e-06 -0.007578 4.35e-06 -0.002580 0.957960 ( 0.067157) 0.960540 ( 0.068439) 0.992500 1.000000 --->plink-------dash-----: 1.47e-09 0.962975 1.25e-01 -1.192040 0.957960 ( 0.067157) 2.150000 ( 7.695434) 0.992500 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.960540 ( 0.068439) 0.960540 ( 0.068439) 1.000000 1.000000 --->germline1---dash-----: 6.91e-10 0.963541 1.25e-01 -1.189460 0.960540 ( 0.068439) 2.150000 ( 7.695434) 1.000000 0.000000 --->germline2---dash-----: 6.91e-10 0.963541 1.25e-01 -1.189460 0.960540 ( 0.068439) 2.150000 ( 7.695434) 1.000000 0.000000 ######trueNSnps###### --->fabia-------beagle1--: 3.96e-18 7409 2.38e-85 7344 8923 ( 157) 1579 ( 1073) 8973 1486 --->fabia-------beagle2--: 4.46e-18 1839 5.98e-28 1886 8923 ( 157) 7036 ( 1214) 8973 7202 --->fabia-------plink----: 3.96e-18 1065 4.5e-48 1078 8923 ( 157) 7845 ( 355) 8973 7872 --->fabia-------germline1: 1e+00 0 1e+00 0 8923 ( 157) 0 ( 0) 8973 0 --->fabia-------germline2: 3.78e-18 8931 3.38e-176 8918 8923 ( 157) 4.57 ( 16.5) 8973 0 --->fabia-------dash-----: 6.36e-13 -149 2.24e-12 -115 8923 ( 157) 9037 ( 69) 8973 9000 --->beagle1-----beagle2--: 3.96e-18 -5519 1.78e-57 -5458 1579 ( 1073) 7036 ( 1214) 1486 7202 --->beagle1-----plink----: 3.96e-18 -6321 3.18e-79 -6266 1579 ( 1073) 7845 ( 355) 1486 7872 --->beagle1-----germline1: 1e+00 0 1e+00 0 1579 ( 1073) 0 ( 0) 1486 0 --->beagle1-----germline2: 4.08e-18 1503 1.5e-26 1574 1579 ( 1073) 4.57 ( 16.5) 1486 0 --->beagle1-----dash-----: 3.96e-18 -7517 6.75e-86 -7459 1579 ( 1073) 9037 ( 69) 1486 9000 --->beagle2-----plink----: 2.16e-07 -752 2.22e-08 -809 7036 ( 1214) 7845 ( 355) 7202 7872 --->beagle2-----germline1: 1e+00 0 1e+00 0 7036 ( 1214) 0 ( 0) 7202 0 --->beagle2-----germline2: 3.96e-18 7091 3.49e-78 7032 7036 ( 1214) 4.57 ( 16.5) 7202 0 --->beagle2-----dash-----: 3.96e-18 -1949 7.66e-30 -2001 7036 ( 1214) 9037 ( 69) 7202 9000 --->plink-------germline1: 1e+00 0 1e+00 0 7845 ( 355) 0 ( 0) 7872 0 --->plink-------germline2: 3.96e-18 7853 4.03e-135 7840 7845 ( 355) 4.57 ( 16.5) 7872 0 --->plink-------dash-----: 3.96e-18 -1173 2.6e-56 -1192 7845 ( 355) 9037 ( 69) 7872 9000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 4.570000 (16.529285) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 9037 ( 69) 0 9000 --->germline2---dash-----: 1.09e-18 -9014 1.23e-211 -9033 4.57 ( 16.5) 9037 ( 69) 0 9000 ######falsePSnps###### --->fabia-------beagle1--: 3.96e-18 -7409 2.38e-85 -7344 117 ( 143) 7461 ( 1071) 45.5 7524 --->fabia-------beagle2--: 4.46e-18 -1839 5.98e-28 -1886 117 ( 143) 2003 ( 1226) 45.5 1824 --->fabia-------plink----: 3.96e-18 -1065 4.5e-48 -1078 117 ( 143) 1195 ( 352) 45.5 1155 --->fabia-------germline1: 3.71e-18 -8937 8.21e-176 -8923 117 ( 143) 9039 ( 68.4) 45.5 9000 --->fabia-------germline2: 3.78e-18 -8931 3.38e-176 -8918 117 ( 143) 9035 ( 68.5) 45.5 9000 --->fabia-------dash-----: 1e+00 0 1e+00 0 117 ( 143) 0 ( 0) 45.5 0 --->beagle1-----beagle2--: 3.96e-18 5519 1.78e-57 5458 7461 ( 1071) 2003 ( 1226) 7524 1824 --->beagle1-----plink----: 3.96e-18 6321 3.18e-79 6266 7461 ( 1071) 1195 ( 352) 7524 1155 --->beagle1-----germline1: 4.08e-18 -1509 1.2e-26 -1579 7461 ( 1071) 9039 ( 68.4) 7524 9000 --->beagle1-----germline2: 4.08e-18 -1503 1.5e-26 -1574 7461 ( 1071) 9035 ( 68.5) 7524 9000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 7461 ( 1071) 0 ( 0) 7524 0 --->beagle2-----plink----: 2.16e-07 752 2.22e-08 809 2003 ( 1226) 1195 ( 352) 1824 1155 --->beagle2-----germline1: 3.96e-18 -7095 3.22e-78 -7036 2003 ( 1226) 9039 ( 68.4) 1824 9000 --->beagle2-----germline2: 3.96e-18 -7091 3.49e-78 -7032 2003 ( 1226) 9035 ( 68.5) 1824 9000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 2003 ( 1226) 0 ( 0) 1824 0 --->plink-------germline1: 3.96e-18 -7859 3.25e-135 -7845 1195 ( 352) 9039 ( 68.4) 1155 9000 --->plink-------germline2: 3.96e-18 -7853 4.03e-135 -7840 1195 ( 352) 9035 ( 68.5) 1155 9000 --->plink-------dash-----: 1e+00 0 1e+00 0 1195 ( 352) 0 ( 0) 1155 0 --->germline1---germline2: 1e+00 0 6.79e-03 4.57 9039 ( 68.4) 9035 ( 68.5) 9000 9000 --->germline1---dash-----: 1e+00 0 1e+00 0 9039 ( 68.4) 0 ( 0) 9000 0 --->germline2---dash-----: 1e+00 0 1e+00 0 9035 ( 68.5) 0 ( 0) 9000 0 ######falseNSnps###### --->fabia-------beagle1--: 2.41e-17 223 4.03e-30 218 282 ( 98.7) 64.5 ( 106) 258 0 --->fabia-------beagle2--: 1.54e-11 -242 2.62e-14 -231 282 ( 98.7) 513 ( 247) 258 554 --->fabia-------plink----: 3.95e-18 271 1.88e-49 280 282 ( 98.7) 2.58 ( 5.31) 258 0 --->fabia-------germline1: 1e+00 0 1e+00 0 282 ( 98.7) 0 ( 0) 258 0 --->fabia-------germline2: 1e+00 0 1e+00 0 282 ( 98.7) 0 ( 0) 258 0 --->fabia-------dash-----: 3.95e-18 -682 8.09e-88 -678 282 ( 98.7) 961 ( 68.4) 258 1000 --->beagle1-----beagle2--: 1.7e-17 -475 4.07e-34 -449 64.5 ( 106) 513 ( 247) 0 554 --->beagle1-----plink----: 1e+00 0.000000 5.66e-08 61.930000 64.510000 (105.568159) 2.580000 ( 5.305191) 0.000000 0.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 64.510000 (105.568159) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 64.510000 (105.568159) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----dash-----: 2.27e-18 -900 3.23e-90 -896 64.5 ( 106) 961 ( 68.4) 0 1000 --->beagle2-----plink----: 8.69e-18 512 1.14e-37 511 513 ( 247) 2.58 ( 5.31) 554 0 --->beagle2-----germline1: 1e+00 0 1e+00 0 513 ( 247) 0 ( 0) 554 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 513 ( 247) 0 ( 0) 554 0 --->beagle2-----dash-----: 5.15e-18 -435 8.22e-36 -447 513 ( 247) 961 ( 68.4) 554 1000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 2.580000 ( 5.305191) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 2.580000 ( 5.305191) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------dash-----: 2.72e-18 -980 2.05e-116 -958 2.58 ( 5.31) 961 ( 68.4) 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) 961 ( 68.4) 0 1000 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 961 ( 68.4) 0 1000 ######truePSnps###### --->fabia-------beagle1--: 2.41e-17 -223 4.03e-30 -218 678 ( 93.1) 896 ( 116) 684 947 --->fabia-------beagle2--: 1.54e-11 242 2.62e-14 231 678 ( 93.1) 447 ( 229) 684 400 --->fabia-------plink----: 3.95e-18 -271 1.88e-49 -280 678 ( 93.1) 958 ( 67.2) 684 992 --->fabia-------germline1: 3.95e-18 -274 1.24e-49 -282 678 ( 93.1) 961 ( 68.4) 684 1000 --->fabia-------germline2: 3.95e-18 -274 1.24e-49 -282 678 ( 93.1) 961 ( 68.4) 684 1000 --->fabia-------dash-----: 1e+00 0 1e+00 0 678 ( 93.1) 0 ( 0) 684 0 --->beagle1-----beagle2--: 1.7e-17 475 4.07e-34 449 896 ( 116) 447 ( 229) 947 400 --->beagle1-----plink----: 4.82e-06 -98.5 5.66e-08 -61.9 896 ( 116) 958 ( 67.2) 947 992 --->beagle1-----germline1: 1.36e-07 -200 1.97e-08 -64.5 896 ( 116) 961 ( 68.4) 947 1000 --->beagle1-----germline2: 1.36e-07 -200 1.97e-08 -64.5 896 ( 116) 961 ( 68.4) 947 1000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 896 ( 116) 0 ( 0) 947 0 --->beagle2-----plink----: 8.69e-18 -512 1.14e-37 -511 447 ( 229) 958 ( 67.2) 400 992 --->beagle2-----germline1: 1.1e-17 -522 7.64e-38 -513 447 ( 229) 961 ( 68.4) 400 1000 --->beagle2-----germline2: 1.1e-17 -522 7.64e-38 -513 447 ( 229) 961 ( 68.4) 400 1000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 447 ( 229) 0 ( 0) 400 0 --->plink-------germline1: 1.21e-06 -7.5 4.35e-06 -2.58 958 ( 67.2) 961 ( 68.4) 992 1000 --->plink-------germline2: 1.21e-06 -7.5 4.35e-06 -2.58 958 ( 67.2) 961 ( 68.4) 992 1000 --->plink-------dash-----: 1e+00 0 1e+00 0 958 ( 67.2) 0 ( 0) 992 0 --->germline1---germline2: 1e+00 0 1e+00 0 961 ( 68.4) 961 ( 68.4) 1000 1000 --->germline1---dash-----: 1e+00 0 1e+00 0 961 ( 68.4) 0 ( 0) 1000 0 --->germline2---dash-----: 1e+00 0 1e+00 0 961 ( 68.4) 0 ( 0) 1000 0 ######MatthewsSample###### --->fabia-------beagle1--: 3.96e-18 0.650550 3.84e-63 0.654794 0.953395 ( 0.068323) 0.298601 ( 0.150908) 1.000000 0.308669 --->fabia-------beagle2--: 3.95e-18 0.699886 1.04e-70 0.703173 0.953395 ( 0.068323) 0.250222 ( 0.122055) 1.000000 0.265165 --->fabia-------plink----: 5.38e-16 0.123138 3.32e-25 0.118775 0.953395 ( 0.068323) 0.834620 ( 0.061564) 1.000000 0.825998 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.953395 ( 0.068323) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.953395 ( 0.068323) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------dash-----: 3.83e-18 0.388304 5.59e-75 0.379009 0.953395 ( 0.068323) 0.574386 ( 0.024072) 1.000000 0.571429 --->beagle1-----beagle2--: 4.22e-04 0.047597 2.32e-04 0.048379 0.298601 ( 0.150908) 0.250222 ( 0.122055) 0.308669 0.265165 --->beagle1-----plink----: 3.96e-18 -0.530051 2.13e-55 -0.536019 0.298601 ( 0.150908) 0.834620 ( 0.061564) 0.308669 0.825998 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.298601 ( 0.150908) 0.000000 ( 0.000000) 0.308669 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.298601 ( 0.150908) 0.000000 ( 0.000000) 0.308669 0.000000 --->beagle1-----dash-----: 4.89e-18 -0.270607 1.73e-33 -0.275785 0.298601 ( 0.150908) 0.574386 ( 0.024072) 0.308669 0.571429 --->beagle2-----plink----: 3.96e-18 -0.579006 4.83e-65 -0.584398 0.250222 ( 0.122055) 0.834620 ( 0.061564) 0.265165 0.825998 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.250222 ( 0.122055) 0.000000 ( 0.000000) 0.265165 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.250222 ( 0.122055) 0.000000 ( 0.000000) 0.265165 0.000000 --->beagle2-----dash-----: 4.06e-18 -0.317632 1.5e-44 -0.324164 0.250222 ( 0.122055) 0.574386 ( 0.024072) 0.265165 0.571429 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.834620 ( 0.061564) 0.000000 ( 0.000000) 0.825998 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.834620 ( 0.061564) 0.000000 ( 0.000000) 0.825998 0.000000 --->plink-------dash-----: 3.94e-18 0.260524 1.72e-62 0.260234 0.834620 ( 0.061564) 0.574386 ( 0.024072) 0.825998 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) 0.574386 ( 0.024072) 0.000000 0.571429 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.574386 ( 0.024072) 0.000000 0.571429 ######F1Sample###### --->fabia-------beagle1--: 3.95e-18 0.456746 2.57e-55 0.459306 0.959875 ( 0.061155) 0.500569 ( 0.126004) 1.000000 0.530331 --->fabia-------beagle2--: 3.95e-18 0.751077 5.63e-75 0.741335 0.959875 ( 0.061155) 0.218540 ( 0.119126) 1.000000 0.217391 --->fabia-------plink----: 4.02e-11 0.065614 2.78e-14 0.059109 0.959875 ( 0.061155) 0.900766 ( 0.037034) 1.000000 0.893867 --->fabia-------germline1: 3.83e-18 0.394107 8.66e-80 0.385489 0.959875 ( 0.061155) 0.574386 ( 0.024072) 1.000000 0.571429 --->fabia-------germline2: 3.83e-18 0.394107 8.66e-80 0.385489 0.959875 ( 0.061155) 0.574386 ( 0.024072) 1.000000 0.571429 --->fabia-------dash-----: 3.83e-18 0.565033 2.24e-95 0.556575 0.959875 ( 0.061155) 0.403300 ( 0.023658) 1.000000 0.400000 --->beagle1-----beagle2--: 4.08e-18 0.282742 2.92e-46 0.282029 0.500569 ( 0.126004) 0.218540 ( 0.119126) 0.530331 0.217391 --->beagle1-----plink----: 3.96e-18 -0.391877 3.46e-52 -0.400197 0.500569 ( 0.126004) 0.900766 ( 0.037034) 0.530331 0.893867 --->beagle1-----germline1: 1.05e-06 -0.068020 6.63e-08 -0.073817 0.500569 ( 0.126004) 0.574386 ( 0.024072) 0.530331 0.571429 --->beagle1-----germline2: 1.05e-06 -0.068020 6.63e-08 -0.073817 0.500569 ( 0.126004) 0.574386 ( 0.024072) 0.530331 0.571429 --->beagle1-----dash-----: 6.68e-10 0.103804 1.08e-11 0.097269 0.500569 ( 0.126004) 0.403300 ( 0.023658) 0.530331 0.400000 --->beagle2-----plink----: 3.96e-18 -0.685128 5.51e-75 -0.682226 0.218540 ( 0.119126) 0.900766 ( 0.037034) 0.217391 0.893867 --->beagle2-----germline1: 4.31e-18 -0.361097 4.05e-49 -0.355846 0.218540 ( 0.119126) 0.574386 ( 0.024072) 0.217391 0.571429 --->beagle2-----germline2: 4.31e-18 -0.361097 4.05e-49 -0.355846 0.218540 ( 0.119126) 0.574386 ( 0.024072) 0.217391 0.571429 --->beagle2-----dash-----: 2.13e-16 -0.189884 1.47e-26 -0.184760 0.218540 ( 0.119126) 0.403300 ( 0.023658) 0.217391 0.400000 --->plink-------germline1: 3.94e-18 0.325900 3.49e-91 0.326380 0.900766 ( 0.037034) 0.574386 ( 0.024072) 0.893867 0.571429 --->plink-------germline2: 3.94e-18 0.325900 3.49e-91 0.326380 0.900766 ( 0.037034) 0.574386 ( 0.024072) 0.893867 0.571429 --->plink-------dash-----: 3.94e-18 0.497079 2.44e-109 0.497466 0.900766 ( 0.037034) 0.403300 ( 0.023658) 0.893867 0.400000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.574386 ( 0.024072) 0.574386 ( 0.024072) 0.571429 0.571429 --->germline1---dash-----: 3.32e-18 0.171225 1.51e-238 0.171086 0.574386 ( 0.024072) 0.403300 ( 0.023658) 0.571429 0.400000 --->germline2---dash-----: 3.32e-18 0.171225 1.51e-238 0.171086 0.574386 ( 0.024072) 0.403300 ( 0.023658) 0.571429 0.400000 ######accuracySample###### --->fabia-------beagle1--: 3.92e-18 0.307448 8.75e-70 0.308150 0.983950 ( 0.023315) 0.675800 ( 0.061680) 1.000000 0.680000 --->fabia-------beagle2--: 3.84e-18 0.340033 7.71e-84 0.339150 0.983950 ( 0.023315) 0.644800 ( 0.043263) 1.000000 0.640000 --->fabia-------plink----: 7.82e-18 0.074995 1.28e-33 0.073550 0.983950 ( 0.023315) 0.910400 ( 0.035927) 1.000000 0.910000 --->fabia-------germline1: 3.77e-18 0.582466 1.53e-126 0.580650 0.983950 ( 0.023315) 0.403300 ( 0.023658) 1.000000 0.400000 --->fabia-------germline2: 3.77e-18 0.582466 1.53e-126 0.580650 0.983950 ( 0.023315) 0.403300 ( 0.023658) 1.000000 0.400000 --->fabia-------dash-----: 3.83e-18 0.853039 4.3e-155 0.851350 0.983950 ( 0.023315) 0.132600 ( 0.005257) 1.000000 0.133333 --->beagle1-----beagle2--: 3.78e-07 0.034980 1.2e-07 0.031000 0.675800 ( 0.061680) 0.644800 ( 0.043263) 0.680000 0.640000 --->beagle1-----plink----: 3.9e-18 -0.234999 1.44e-55 -0.234600 0.675800 ( 0.061680) 0.910400 ( 0.035927) 0.680000 0.910000 --->beagle1-----germline1: 3.93e-18 0.274998 7.52e-63 0.272500 0.675800 ( 0.061680) 0.403300 ( 0.023658) 0.680000 0.400000 --->beagle1-----germline2: 3.93e-18 0.274998 7.52e-63 0.272500 0.675800 ( 0.061680) 0.403300 ( 0.023658) 0.680000 0.400000 --->beagle1-----dash-----: 3.95e-18 0.544444 4.67e-96 0.543200 0.675800 ( 0.061680) 0.132600 ( 0.005257) 0.680000 0.133333 --->beagle2-----plink----: 3.86e-18 -0.265070 5.96e-69 -0.265600 0.644800 ( 0.043263) 0.910400 ( 0.035927) 0.640000 0.910000 --->beagle2-----germline1: 3.86e-18 0.240073 1.65e-62 0.241500 0.644800 ( 0.043263) 0.403300 ( 0.023658) 0.640000 0.400000 --->beagle2-----germline2: 3.86e-18 0.240073 1.65e-62 0.241500 0.644800 ( 0.043263) 0.403300 ( 0.023658) 0.640000 0.400000 --->beagle2-----dash-----: 3.93e-18 0.511120 1.26e-111 0.512200 0.644800 ( 0.043263) 0.132600 ( 0.005257) 0.640000 0.133333 --->plink-------germline1: 3.81e-18 0.509994 1.91e-108 0.507100 0.910400 ( 0.035927) 0.403300 ( 0.023658) 0.910000 0.400000 --->plink-------germline2: 3.81e-18 0.509994 1.91e-108 0.507100 0.910400 ( 0.035927) 0.403300 ( 0.023658) 0.910000 0.400000 --->plink-------dash-----: 3.94e-18 0.778848 8.78e-134 0.777800 0.910400 ( 0.035927) 0.132600 ( 0.005257) 0.910000 0.133333 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.403300 ( 0.023658) 0.403300 ( 0.023658) 0.400000 0.400000 --->germline1---dash-----: 3.32e-18 0.272739 1.92e-98 0.270700 0.403300 ( 0.023658) 0.132600 ( 0.005257) 0.400000 0.133333 --->germline2---dash-----: 3.32e-18 0.272739 1.92e-98 0.270700 0.403300 ( 0.023658) 0.132600 ( 0.005257) 0.400000 0.133333 ######FPRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.019800 ( 0.007575) 0.000000 0.020000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000756 ( 0.001648) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.019578 ( 0.007786) 0.000000 0.020000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.132600 ( 0.005257) 0.000000 0.133333 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.132600 ( 0.005257) 0.000000 0.133333 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.596700 ( 0.023658) 0.000000 0.600000 --->beagle1-----beagle2--: 3.78e-18 0.018838 2.68e-45 0.019044 0.019800 ( 0.007575) 0.000756 ( 0.001648) 0.020000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 8.29e-01 0.000222 0.019800 ( 0.007575) 0.019578 ( 0.007786) 0.020000 0.020000 --->beagle1-----germline1: 3.94e-18 -0.113301 4.95e-116 -0.112800 0.019800 ( 0.007575) 0.132600 ( 0.005257) 0.020000 0.133333 --->beagle1-----germline2: 3.94e-18 -0.113301 4.95e-116 -0.112800 0.019800 ( 0.007575) 0.132600 ( 0.005257) 0.020000 0.133333 --->beagle1-----dash-----: 3.93e-18 -0.576674 6.14e-141 -0.576900 0.019800 ( 0.007575) 0.596700 ( 0.023658) 0.020000 0.600000 --->beagle2-----plink----: 5.48e-18 -0.018816 4.99e-43 -0.018822 0.000756 ( 0.001648) 0.019578 ( 0.007786) 0.000000 0.020000 --->beagle2-----germline1: 3.59e-18 -0.132160 2.14e-138 -0.131844 0.000756 ( 0.001648) 0.132600 ( 0.005257) 0.000000 0.133333 --->beagle2-----germline2: 3.59e-18 -0.132160 2.14e-138 -0.131844 0.000756 ( 0.001648) 0.132600 ( 0.005257) 0.000000 0.133333 --->beagle2-----dash-----: 3.59e-18 -0.595038 1.21e-140 -0.595944 0.000756 ( 0.001648) 0.596700 ( 0.023658) 0.000000 0.600000 --->plink-------germline1: 3.94e-18 -0.113307 6.54e-110 -0.113022 0.019578 ( 0.007786) 0.132600 ( 0.005257) 0.020000 0.133333 --->plink-------germline2: 3.94e-18 -0.113307 6.54e-110 -0.113022 0.019578 ( 0.007786) 0.132600 ( 0.005257) 0.020000 0.133333 --->plink-------dash-----: 3.93e-18 -0.577215 1.04e-137 -0.577122 0.019578 ( 0.007786) 0.596700 ( 0.023658) 0.020000 0.600000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.132600 ( 0.005257) 0.132600 ( 0.005257) 0.133333 0.133333 --->germline1---dash-----: 3.32e-18 -0.462843 7.55e-141 -0.464100 0.132600 ( 0.005257) 0.596700 ( 0.023658) 0.133333 0.600000 --->germline2---dash-----: 3.32e-18 -0.462843 7.55e-141 -0.464100 0.132600 ( 0.005257) 0.596700 ( 0.023658) 0.133333 0.600000 ######FDRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.352172 ( 0.126198) 0.000000 0.357419 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.086286 ( 0.201351) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.176128 ( 0.060296) 0.000000 0.186932 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.596700 ( 0.023658) 0.000000 0.600000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.596700 ( 0.023658) 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--: 7.54e-15 0.290851 1.76e-24 0.265886 0.352172 ( 0.126198) 0.086286 ( 0.201351) 0.357419 0.000000 --->beagle1-----plink----: 2.47e-16 0.175279 3.49e-23 0.176044 0.352172 ( 0.126198) 0.176128 ( 0.060296) 0.357419 0.186932 --->beagle1-----germline1: 8.64e-18 -0.249139 8.14e-37 -0.244528 0.352172 ( 0.126198) 0.596700 ( 0.023658) 0.357419 0.600000 --->beagle1-----germline2: 8.64e-18 -0.249139 8.14e-37 -0.244528 0.352172 ( 0.126198) 0.596700 ( 0.023658) 0.357419 0.600000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.352172 ( 0.126198) 0.000000 ( 0.000000) 0.357419 0.000000 --->beagle2-----plink----: 1.47e-06 -0.141955 4.33e-05 -0.089842 0.086286 ( 0.201351) 0.176128 ( 0.060296) 0.000000 0.186932 --->beagle2-----germline1: 1.09e-17 -0.584986 2.55e-44 -0.510414 0.086286 ( 0.201351) 0.596700 ( 0.023658) 0.000000 0.600000 --->beagle2-----germline2: 1.09e-17 -0.584986 2.55e-44 -0.510414 0.086286 ( 0.201351) 0.596700 ( 0.023658) 0.000000 0.600000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.086286 ( 0.201351) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 3.94e-18 -0.419046 2.16e-85 -0.420572 0.176128 ( 0.060296) 0.596700 ( 0.023658) 0.186932 0.600000 --->plink-------germline2: 3.94e-18 -0.419046 2.16e-85 -0.420572 0.176128 ( 0.060296) 0.596700 ( 0.023658) 0.186932 0.600000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.176128 ( 0.060296) 0.000000 ( 0.000000) 0.186932 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.596700 ( 0.023658) 0.596700 ( 0.023658) 0.600000 0.600000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.596700 ( 0.023658) 0.000000 ( 0.000000) 0.600000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.596700 ( 0.023658) 0.000000 ( 0.000000) 0.600000 0.000000 ######specifitySample###### --->fabia-------beagle1--: 3.94e-18 0.049954 3.6e-81 0.049958 0.162758 ( 0.001961) 0.112800 ( 0.007979) 0.163158 0.113333 --->fabia-------beagle2--: 3.92e-18 0.030930 3.26e-85 0.030913 0.162758 ( 0.001961) 0.131844 ( 0.005535) 0.163158 0.131111 --->fabia-------plink----: 3.94e-18 0.049844 2.18e-77 0.049736 0.162758 ( 0.001961) 0.113022 ( 0.009225) 0.163158 0.111111 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.162758 ( 0.001961) 0.000000 ( 0.000000) 0.163158 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.162758 ( 0.001961) 0.000000 ( 0.000000) 0.163158 0.000000 --->fabia-------dash-----: 3.92e-18 -0.646253 3.32e-113 -0.643842 0.162758 ( 0.001961) 0.806600 ( 0.047316) 0.163158 0.800000 --->beagle1-----beagle2--: 3.9e-18 -0.018873 2.68e-45 -0.019044 0.112800 ( 0.007979) 0.131844 ( 0.005535) 0.113333 0.131111 --->beagle1-----plink----: 9.29e-01 -5.72e-05 8.29e-01 -0.000222 0.112800 ( 0.007979) 0.113022 ( 0.009225) 0.113333 0.111111 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.112800 ( 0.007979) 0.000000 ( 0.000000) 0.113333 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.112800 ( 0.007979) 0.000000 ( 0.000000) 0.113333 0.000000 --->beagle1-----dash-----: 3.94e-18 -0.693338 2.49e-114 -0.693800 0.112800 ( 0.007979) 0.806600 ( 0.047316) 0.113333 0.800000 --->beagle2-----plink----: 5.73e-18 0.018870 4.99e-43 0.018822 0.131844 ( 0.005535) 0.113022 ( 0.009225) 0.131111 0.111111 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.131844 ( 0.005535) 0.000000 ( 0.000000) 0.131111 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.131844 ( 0.005535) 0.000000 ( 0.000000) 0.131111 0.000000 --->beagle2-----dash-----: 3.59e-18 -0.677717 7.45e-112 -0.674756 0.131844 ( 0.005535) 0.806600 ( 0.047316) 0.131111 0.800000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.113022 ( 0.009225) 0.000000 ( 0.000000) 0.111111 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.113022 ( 0.009225) 0.000000 ( 0.000000) 0.111111 0.000000 --->plink-------dash-----: 3.94e-18 -0.693350 7.53e-113 -0.693578 0.113022 ( 0.009225) 0.806600 ( 0.047316) 0.111111 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) 0.806600 ( 0.047316) 0.000000 0.800000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.806600 ( 0.047316) 0.000000 0.800000 ######sensitivitySample###### --->fabia-------beagle1--: 3.87e-18 0.519940 1.09e-57 0.507000 0.843400 ( 0.102615) 0.336400 ( 0.105806) 0.880000 0.340000 --->fabia-------beagle2--: 3.84e-18 0.759975 3.93e-79 0.740400 0.843400 ( 0.102615) 0.103000 ( 0.062498) 0.880000 0.100000 --->fabia-------plink----: 7.31e-06 0.059990 8.22e-05 0.039800 0.843400 ( 0.102615) 0.803600 ( 0.046829) 0.880000 0.800000 --->fabia-------germline1: 1.53e-05 0.050013 3.43e-04 0.036800 0.843400 ( 0.102615) 0.806600 ( 0.047316) 0.880000 0.800000 --->fabia-------germline2: 1.53e-05 0.050013 3.43e-04 0.036800 0.843400 ( 0.102615) 0.806600 ( 0.047316) 0.880000 0.800000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.843400 ( 0.102615) 0.000000 ( 0.000000) 0.880000 0.000000 --->beagle1-----beagle2--: 3.81e-18 0.230052 7.3e-48 0.233400 0.336400 ( 0.105806) 0.103000 ( 0.062498) 0.340000 0.100000 --->beagle1-----plink----: 3.92e-18 -0.460054 9.04e-66 -0.467200 0.336400 ( 0.105806) 0.803600 ( 0.046829) 0.340000 0.800000 --->beagle1-----germline1: 3.91e-18 -0.469989 4.95e-66 -0.470200 0.336400 ( 0.105806) 0.806600 ( 0.047316) 0.340000 0.800000 --->beagle1-----germline2: 3.91e-18 -0.469989 4.95e-66 -0.470200 0.336400 ( 0.105806) 0.806600 ( 0.047316) 0.340000 0.800000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.336400 ( 0.105806) 0.000000 ( 0.000000) 0.340000 0.000000 --->beagle2-----plink----: 3.76e-18 -0.700009 1.59e-94 -0.700600 0.103000 ( 0.062498) 0.803600 ( 0.046829) 0.100000 0.800000 --->beagle2-----germline1: 3.75e-18 -0.709968 1.66e-94 -0.703600 0.103000 ( 0.062498) 0.806600 ( 0.047316) 0.100000 0.800000 --->beagle2-----germline2: 3.75e-18 -0.709968 1.66e-94 -0.703600 0.103000 ( 0.062498) 0.806600 ( 0.047316) 0.100000 0.800000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.103000 ( 0.062498) 0.000000 ( 0.000000) 0.100000 0.000000 --->plink-------germline1: 1e+00 0.000000 1.55e-02 -0.003000 0.803600 ( 0.046829) 0.806600 ( 0.047316) 0.800000 0.800000 --->plink-------germline2: 1e+00 0.000000 1.55e-02 -0.003000 0.803600 ( 0.046829) 0.806600 ( 0.047316) 0.800000 0.800000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.803600 ( 0.046829) 0.000000 ( 0.000000) 0.800000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.806600 ( 0.047316) 0.806600 ( 0.047316) 0.800000 0.800000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.806600 ( 0.047316) 0.000000 ( 0.000000) 0.800000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.806600 ( 0.047316) 0.000000 ( 0.000000) 0.800000 0.000000 ######trueNSample###### --->fabia-------beagle1--: 3.71e-18 104 2.23e-143 104 155 ( 1.86) 50.8 ( 3.59) 155 51 --->fabia-------beagle2--: 3.2e-18 95.5 3.48e-170 95.3 155 ( 1.86) 59.3 ( 2.49) 155 59 --->fabia-------plink----: 3.68e-18 104 7.5e-143 104 155 ( 1.86) 50.9 ( 4.15) 155 50 --->fabia-------germline1: 1e+00 0 1e+00 0 155 ( 1.86) 0 ( 0) 155 0 --->fabia-------germline2: 1e+00 0 1e+00 0 155 ( 1.86) 0 ( 0) 155 0 --->fabia-------dash-----: 3.11e-18 95 4.32e-173 95 155 ( 1.86) 59.7 ( 2.37) 155 60 --->beagle1-----beagle2--: 3.66e-18 -8.5 2.68e-45 -8.57 50.8 ( 3.59) 59.3 ( 2.49) 51 59 --->beagle1-----plink----: 9.22e-01 -5.13e-05 8.29e-01 -0.1 50.8 ( 3.59) 50.9 ( 4.15) 51 50 --->beagle1-----germline1: 1e+00 0 1e+00 0 50.8 ( 3.59) 0 ( 0) 51 0 --->beagle1-----germline2: 1e+00 0 1e+00 0 50.8 ( 3.59) 0 ( 0) 51 0 --->beagle1-----dash-----: 3.57e-18 -9 3.11e-46 -8.91 50.8 ( 3.59) 59.7 ( 2.37) 51 60 --->beagle2-----plink----: 5.29e-18 8.5 4.99e-43 8.47 59.3 ( 2.49) 50.9 ( 4.15) 59 50 --->beagle2-----germline1: 1e+00 0 1e+00 0 59.3 ( 2.49) 0 ( 0) 59 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 59.3 ( 2.49) 0 ( 0) 59 0 --->beagle2-----dash-----: 4.12e-05 -1.5 1.33e-05 -0.34 59.3 ( 2.49) 59.7 ( 2.37) 59 60 --->plink-------germline1: 1e+00 0 1e+00 0 50.9 ( 4.15) 0 ( 0) 50 0 --->plink-------germline2: 1e+00 0 1e+00 0 50.9 ( 4.15) 0 ( 0) 50 0 --->plink-------dash-----: 3.59e-18 -9 8.86e-45 -8.81 50.9 ( 4.15) 59.7 ( 2.37) 50 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) 59.7 ( 2.37) 0 60 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 59.7 ( 2.37) 0 60 ######falsePSample###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 0 ( 0) 8.91 ( 3.41) 0 9 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.340000 ( 0.741552) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0 1e+00 0 0 ( 0) 8.81 ( 3.5) 0 9 --->fabia-------germline1: 1e+00 0 1e+00 0 0 ( 0) 59.7 ( 2.37) 0 60 --->fabia-------germline2: 1e+00 0 1e+00 0 0 ( 0) 59.7 ( 2.37) 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--: 3.66e-18 8.5 2.68e-45 8.57 8.91 ( 3.41) 0.34 ( 0.742) 9 0 --->beagle1-----plink----: 1e+00 0 8.29e-01 0.1 8.91 ( 3.41) 8.81 ( 3.5) 9 9 --->beagle1-----germline1: 3.63e-18 -51 4.95e-116 -50.8 8.91 ( 3.41) 59.7 ( 2.37) 9 60 --->beagle1-----germline2: 3.63e-18 -51 4.95e-116 -50.8 8.91 ( 3.41) 59.7 ( 2.37) 9 60 --->beagle1-----dash-----: 1e+00 0 1e+00 0 8.91 ( 3.41) 0 ( 0) 9 0 --->beagle2-----plink----: 5.29e-18 -8.5 4.99e-43 -8.47 0.34 ( 0.742) 8.81 ( 3.5) 0 9 --->beagle2-----germline1: 3.32e-18 -59.5 2.14e-138 -59.3 0.34 ( 0.742) 59.7 ( 2.37) 0 60 --->beagle2-----germline2: 3.32e-18 -59.5 2.14e-138 -59.3 0.34 ( 0.742) 59.7 ( 2.37) 0 60 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.340000 ( 0.741552) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 3.7e-18 -51 6.54e-110 -50.9 8.81 ( 3.5) 59.7 ( 2.37) 9 60 --->plink-------germline2: 3.7e-18 -51 6.54e-110 -50.9 8.81 ( 3.5) 59.7 ( 2.37) 9 60 --->plink-------dash-----: 1e+00 0 1e+00 0 8.81 ( 3.5) 0 ( 0) 9 0 --->germline1---germline2: 1e+00 0 1e+00 0 59.7 ( 2.37) 59.7 ( 2.37) 60 60 --->germline1---dash-----: 1e+00 0 1e+00 0 59.7 ( 2.37) 0 ( 0) 60 0 --->germline2---dash-----: 1e+00 0 1e+00 0 59.7 ( 2.37) 0 ( 0) 60 0 ######falseNSample###### --->fabia-------beagle1--: 3.95e-18 -20.5 4.37e-49 -20.3 3.21 ( 4.66) 23.5 ( 5.44) 0 23 --->fabia-------beagle2--: 3.83e-18 -32.5 1.3e-71 -32 3.21 ( 4.66) 35.2 ( 4.12) 0 36 --->fabia-------plink----: 1e+00 0.000000 1.23e-09 3.060000 3.210000 ( 4.662975) 0.150000 ( 0.609272) 0.000000 0.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 3.210000 ( 4.662975) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 3.210000 ( 4.662975) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------dash-----: 3.75e-18 -37.5 1.16e-85 -37.1 3.21 ( 4.66) 40.3 ( 2.37) 0 40 --->beagle1-----beagle2--: 3.71e-18 -11.5 7.3e-48 -11.7 23.5 ( 5.44) 35.2 ( 4.12) 23 36 --->beagle1-----plink----: 3.83e-18 23 9.04e-66 23.4 23.5 ( 5.44) 0.15 ( 0.609) 23 0 --->beagle1-----germline1: 1e+00 0 1e+00 0 23.5 ( 5.44) 0 ( 0) 23 0 --->beagle1-----germline2: 1e+00 0 1e+00 0 23.5 ( 5.44) 0 ( 0) 23 0 --->beagle1-----dash-----: 3.82e-18 -17 9.25e-54 -16.8 23.5 ( 5.44) 40.3 ( 2.37) 23 40 --->beagle2-----plink----: 3.66e-18 35 1.59e-94 35 35.2 ( 4.12) 0.15 ( 0.609) 36 0 --->beagle2-----germline1: 1e+00 0 1e+00 0 35.2 ( 4.12) 0 ( 0) 36 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 35.2 ( 4.12) 0 ( 0) 36 0 --->beagle2-----dash-----: 7.27e-18 -5 3.91e-30 -5.15 35.2 ( 4.12) 40.3 ( 2.37) 36 40 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.150000 ( 0.609272) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.150000 ( 0.609272) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------dash-----: 3.29e-18 -40 2.5e-124 -40.2 0.15 ( 0.609) 40.3 ( 2.37) 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) 40.3 ( 2.37) 0 40 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 40.3 ( 2.37) 0 40 ######truePSample###### --->fabia-------beagle1--: 3.81e-18 26 1.09e-57 25.4 42.2 ( 5.13) 16.8 ( 5.29) 44 17 --->fabia-------beagle2--: 3.78e-18 38 3.93e-79 37 42.2 ( 5.13) 5.15 ( 3.12) 44 5 --->fabia-------plink----: 7.6e-06 3 8.22e-05 1.99 42.2 ( 5.13) 40.2 ( 2.34) 44 40 --->fabia-------germline1: 1.69e-05 2.5 3.43e-04 1.84 42.2 ( 5.13) 40.3 ( 2.37) 44 40 --->fabia-------germline2: 1.69e-05 2.5 3.43e-04 1.84 42.2 ( 5.13) 40.3 ( 2.37) 44 40 --->fabia-------dash-----: 3.9e-18 -636 4.65e-177 -636 42.2 ( 5.13) 678 ( 9.74) 44 678 --->beagle1-----beagle2--: 3.71e-18 11.5 7.3e-48 11.7 16.8 ( 5.29) 5.15 ( 3.12) 17 5 --->beagle1-----plink----: 3.83e-18 -23 9.04e-66 -23.4 16.8 ( 5.29) 40.2 ( 2.34) 17 40 --->beagle1-----germline1: 3.82e-18 -23.5 4.95e-66 -23.5 16.8 ( 5.29) 40.3 ( 2.37) 17 40 --->beagle1-----germline2: 3.82e-18 -23.5 4.95e-66 -23.5 16.8 ( 5.29) 40.3 ( 2.37) 17 40 --->beagle1-----dash-----: 3.89e-18 -661 1.03e-176 -661 16.8 ( 5.29) 678 ( 9.74) 17 678 --->beagle2-----plink----: 3.66e-18 -35 1.59e-94 -35 5.15 ( 3.12) 40.2 ( 2.34) 5 40 --->beagle2-----germline1: 3.66e-18 -35.5 1.66e-94 -35.2 5.15 ( 3.12) 40.3 ( 2.37) 5 40 --->beagle2-----germline2: 3.66e-18 -35.5 1.66e-94 -35.2 5.15 ( 3.12) 40.3 ( 2.37) 5 40 --->beagle2-----dash-----: 3.88e-18 -673 2.43e-182 -673 5.15 ( 3.12) 678 ( 9.74) 5 678 --->plink-------germline1: 1e+00 0 1.55e-02 -0.15 40.2 ( 2.34) 40.3 ( 2.37) 40 40 --->plink-------germline2: 1e+00 0 1.55e-02 -0.15 40.2 ( 2.34) 40.3 ( 2.37) 40 40 --->plink-------dash-----: 3.9e-18 -638 5.15e-180 -638 40.2 ( 2.34) 678 ( 9.74) 40 678 --->germline1---germline2: 1e+00 0 1e+00 0 40.3 ( 2.37) 40.3 ( 2.37) 40 40 --->germline1---dash-----: 3.9e-18 -638 3.33e-180 -637 40.3 ( 2.37) 678 ( 9.74) 40 678 --->germline2---dash-----: 3.9e-18 -638 3.33e-180 -637 40.3 ( 2.37) 678 ( 9.74) 40 678