Results: Wilcoxon-Rank-Sum Wilcoxon-median t-test t-test-mean mean1 (std) mean2 (std) median1 median2 ######Matthews###### --->fabia-------beagle1--: 6.22e-18 0.797611 7.44e-56 0.756990 0.769444 ( 0.225958) 0.012454 ( 0.000970) 0.851164 0.012444 --->fabia-------beagle2--: 6.22e-18 0.760332 5.54e-54 0.718379 0.769444 ( 0.225958) 0.051065 ( 0.006622) 0.851164 0.051768 --->fabia-------plink----: 6.22e-18 0.748166 2.61e-53 0.707207 0.769444 ( 0.225958) 0.062237 ( 0.004593) 0.851164 0.061863 --->fabia-------germline1: 4.08e-18 0.812723 1.27e-56 0.772510 0.769444 ( 0.225958) -0.003066 ( 0.003929) 0.851164 -0.002693 --->fabia-------germline2: 4.6e-18 0.813141 1.35e-56 0.772325 0.769444 ( 0.225958) -0.002881 ( 0.003578) 0.851164 -0.003246 --->fabia-------dash-----: 6.22e-18 0.809847 1.84e-56 0.769339 0.769444 ( 0.225958) 0.000105 ( 4.95e-05) 0.851164 0.000103 --->beagle1-----beagle2--: 3.96e-18 -0.038909 2.1e-82 -0.038611 0.012454 ( 0.000970) 0.051065 ( 0.006622) 0.012444 0.051768 --->beagle1-----plink----: 3.96e-18 -0.049728 4.83e-113 -0.049782 0.012454 ( 0.000970) 0.062237 ( 0.004593) 0.012444 0.061863 --->beagle1-----germline1: 3.96e-18 0.015493 1.22e-63 0.015520 0.012454 ( 0.000970) -0.003066 ( 0.003929) 0.012444 -0.002693 --->beagle1-----germline2: 3.96e-18 0.015562 2.59e-67 0.015335 0.012454 ( 0.000970) -0.002881 ( 0.003578) 0.012444 -0.003246 --->beagle1-----dash-----: 3.96e-18 0.012402 1.6e-112 0.012349 0.012454 ( 0.000970) 0.000105 ( 4.95e-05) 0.012444 0.000103 --->beagle2-----plink----: 3.96e-18 -0.010876 2.06e-36 -0.011172 0.051065 ( 0.006622) 0.062237 ( 0.004593) 0.051768 0.061863 --->beagle2-----germline1: 3.96e-18 0.054497 2.24e-89 0.054131 0.051065 ( 0.006622) -0.003066 ( 0.003929) 0.051768 -0.002693 --->beagle2-----germline2: 3.96e-18 0.054222 1.42e-89 0.053946 0.051065 ( 0.006622) -0.002881 ( 0.003578) 0.051768 -0.003246 --->beagle2-----dash-----: 3.96e-18 0.051273 3.09e-90 0.050960 0.051065 ( 0.006622) 0.000105 ( 4.95e-05) 0.051768 0.000103 --->plink-------germline1: 3.96e-18 0.065211 1.84e-110 0.065303 0.062237 ( 0.004593) -0.003066 ( 0.003929) 0.061863 -0.002693 --->plink-------germline2: 3.96e-18 0.065146 3.43e-113 0.065118 0.062237 ( 0.004593) -0.002881 ( 0.003578) 0.061863 -0.003246 --->plink-------dash-----: 3.96e-18 0.062076 2.29e-114 0.062132 0.062237 ( 0.004593) 0.000105 ( 4.95e-05) 0.061863 0.000103 --->germline1---germline2: 1.57e-01 -0.000415 4.95e-01 -0.000185 -0.003066 ( 0.003929) -0.002881 ( 0.003578) -0.002693 -0.003246 --->germline1---dash-----: 2.22e-10 -0.003169 1.1e-12 -0.003171 -0.003066 ( 0.003929) 0.000105 ( 4.95e-05) -0.002693 0.000103 --->germline2---dash-----: 4.84e-11 -0.003229 2.9e-13 -0.002986 -0.002881 ( 0.003578) 0.000105 ( 4.95e-05) -0.003246 0.000103 ######F1###### --->fabia-------beagle1--: 6.22e-18 0.794674 6.29e-53 0.749976 0.750440 ( 0.240971) 0.000464 ( 5.84e-05) 0.846576 0.000459 --->fabia-------beagle2--: 6.22e-18 0.789709 1.09e-52 0.744864 0.750440 ( 0.240971) 0.005576 ( 0.001147) 0.846576 0.005514 --->fabia-------plink----: 6.22e-18 0.787443 1.47e-52 0.742386 0.750440 ( 0.240971) 0.008055 ( 0.001085) 0.846576 0.007893 --->fabia-------germline1: 6.22e-18 0.795108 6.05e-53 0.750327 0.750440 ( 0.240971) 0.000113 ( 5.17e-05) 0.846576 0.000109 --->fabia-------germline2: 7.85e-18 0.801049 6.04e-53 0.750340 0.750440 ( 0.240971) 9.99e-05 ( 6.62e-05) 0.846576 9.44e-05 --->fabia-------dash-----: 1.22e-16 0.471971 1.86e-32 0.427243 0.750440 ( 0.240971) 0.323197 ( 0.003338) 0.846576 0.322943 --->beagle1-----beagle2--: 3.96e-18 -0.005075 1.11e-68 -0.005112 0.000464 ( 5.84e-05) 0.005576 ( 0.001147) 0.000459 0.005514 --->beagle1-----plink----: 3.96e-18 -0.007572 2.79e-88 -0.007591 0.000464 ( 5.84e-05) 0.008055 ( 0.001085) 0.000459 0.007893 --->beagle1-----germline1: 3.96e-18 0.000363 3.69e-81 0.000351 0.000464 ( 5.84e-05) 0.000113 ( 5.17e-05) 0.000459 0.000109 --->beagle1-----germline2: 3.96e-18 0.000350 3.26e-76 0.000364 0.000464 ( 5.84e-05) 9.99e-05 ( 6.62e-05) 0.000459 9.44e-05 --->beagle1-----dash-----: 3.96e-18 -0.322620 1.47e-198 -0.322733 0.000464 ( 5.84e-05) 0.323197 ( 0.003338) 0.000459 0.322943 --->beagle2-----plink----: 3.96e-18 -0.002495 1.76e-43 -0.002479 0.005576 ( 0.001147) 0.008055 ( 0.001085) 0.005514 0.007893 --->beagle2-----germline1: 3.96e-18 0.005428 1.16e-70 0.005463 0.005576 ( 0.001147) 0.000113 ( 5.17e-05) 0.005514 0.000109 --->beagle2-----germline2: 3.96e-18 0.005441 1.05e-70 0.005476 0.005576 ( 0.001147) 9.99e-05 ( 6.62e-05) 0.005514 9.44e-05 --->beagle2-----dash-----: 3.96e-18 -0.317472 3.79e-196 -0.317621 0.005576 ( 0.001147) 0.323197 ( 0.003338) 0.005514 0.322943 --->plink-------germline1: 3.96e-18 0.007904 5.96e-89 0.007942 0.008055 ( 0.001085) 0.000113 ( 5.17e-05) 0.007893 0.000109 --->plink-------germline2: 3.96e-18 0.007916 3.06e-89 0.007955 0.008055 ( 0.001085) 9.99e-05 ( 6.62e-05) 0.007893 9.44e-05 --->plink-------dash-----: 3.96e-18 -0.314958 5.86e-195 -0.315142 0.008055 ( 0.001085) 0.323197 ( 0.003338) 0.007893 0.322943 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000113 ( 5.17e-05) 9.99e-05 ( 6.62e-05) 0.000109 9.44e-05 --->germline1---dash-----: 3.96e-18 -0.322974 1.08e-198 -0.323084 0.000113 ( 5.17e-05) 0.323197 ( 0.003338) 0.000109 0.322943 --->germline2---dash-----: 3.96e-18 -0.322984 1.07e-198 -0.323097 9.99e-05 ( 6.62e-05) 0.323197 ( 0.003338) 9.44e-05 0.322943 ######accuracy###### --->fabia-------beagle1--: 3.96e-18 0.317231 4.67e-154 0.317227 0.999977 ( 2.68e-05) 0.682751 ( 0.009246) 0.999990 0.683015 --->fabia-------beagle2--: 3.96e-18 0.025992 7.36e-83 0.026133 0.999977 ( 2.68e-05) 0.973844 ( 0.004037) 0.999990 0.974017 --->fabia-------plink----: 3.96e-18 0.017926 1.51e-134 0.017929 0.999977 ( 2.68e-05) 0.982048 ( 0.000825) 0.999990 0.982080 --->fabia-------germline1: 3.96e-18 0.680051 2.24e-239 0.679989 0.999977 ( 2.68e-05) 0.319988 ( 0.002726) 0.999990 0.319987 --->fabia-------germline2: 3.96e-18 0.502412 2.32e-217 0.502325 0.999977 ( 2.68e-05) 0.497652 ( 0.003359) 0.999990 0.497636 --->fabia-------dash-----: 3.96e-18 0.323056 1.16e-198 0.323163 0.999977 ( 2.68e-05) 0.676815 ( 0.003336) 0.999990 0.677065 --->beagle1-----beagle2--: 3.96e-18 -0.291214 2.28e-154 -0.291093 0.682751 ( 0.009246) 0.973844 ( 0.004037) 0.683015 0.974017 --->beagle1-----plink----: 3.96e-18 -0.299310 8.56e-153 -0.299297 0.682751 ( 0.009246) 0.982048 ( 0.000825) 0.683015 0.982080 --->beagle1-----germline1: 3.96e-18 0.362749 8.4e-158 0.362762 0.682751 ( 0.009246) 0.319988 ( 0.002726) 0.683015 0.319987 --->beagle1-----germline2: 3.96e-18 0.185057 1.07e-128 0.185099 0.682751 ( 0.009246) 0.497652 ( 0.003359) 0.683015 0.497636 --->beagle1-----dash-----: 8.71e-08 0.005953 2.51e-08 0.005936 0.682751 ( 0.009246) 0.676815 ( 0.003336) 0.683015 0.677065 --->beagle2-----plink----: 4.08e-18 -0.007978 2.36e-37 -0.008204 0.973844 ( 0.004037) 0.982048 ( 0.000825) 0.974017 0.982080 --->beagle2-----germline1: 3.96e-18 0.653995 1.15e-213 0.653855 0.973844 ( 0.004037) 0.319988 ( 0.002726) 0.974017 0.319987 --->beagle2-----germline2: 3.96e-18 0.476275 1.22e-196 0.476192 0.973844 ( 0.004037) 0.497652 ( 0.003359) 0.974017 0.497636 --->beagle2-----dash-----: 3.96e-18 0.296949 2.57e-175 0.297029 0.973844 ( 0.004037) 0.676815 ( 0.003336) 0.974017 0.677065 --->plink-------germline1: 3.96e-18 0.662162 1.49e-236 0.662060 0.982048 ( 0.000825) 0.319988 ( 0.002726) 0.982080 0.319987 --->plink-------germline2: 3.96e-18 0.484477 1.67e-214 0.484396 0.982048 ( 0.000825) 0.497652 ( 0.003359) 0.982080 0.497636 --->plink-------dash-----: 3.96e-18 0.305166 2.82e-194 0.305233 0.982048 ( 0.000825) 0.676815 ( 0.003336) 0.982080 0.677065 --->germline1---germline2: 3.96e-18 -0.177690 1.27e-200 -0.177664 0.319988 ( 0.002726) 0.497652 ( 0.003359) 0.319987 0.497636 --->germline1---dash-----: 3.96e-18 -0.357049 1.33e-178 -0.356826 0.319988 ( 0.002726) 0.676815 ( 0.003336) 0.319987 0.677065 --->germline2---dash-----: 3.96e-18 -0.179469 5.85e-146 -0.179163 0.497652 ( 0.003359) 0.676815 ( 0.003336) 0.497636 0.677065 ######FPR###### --->fabia-------beagle1--: 3.96e-18 -0.317261 4.62e-154 -0.317255 1.7e-05 ( 2.85e-05) 0.317272 ( 0.009247) 2.48e-06 0.317008 --->fabia-------beagle2--: 3.96e-18 -0.025975 7.15e-83 -0.026139 1.7e-05 ( 2.85e-05) 0.026156 ( 0.004038) 2.48e-06 0.025984 --->fabia-------plink----: 3.96e-18 -0.017926 1.23e-134 -0.017935 1.7e-05 ( 2.85e-05) 0.017952 ( 0.000825) 2.48e-06 0.017920 --->fabia-------germline1: 3.96e-18 -0.680081 2.12e-239 -0.680009 1.7e-05 ( 2.85e-05) 0.680026 ( 0.002725) 2.48e-06 0.680016 --->fabia-------germline2: 3.96e-18 -0.502412 2.22e-217 -0.502319 1.7e-05 ( 2.85e-05) 0.502336 ( 0.003358) 2.48e-06 0.502358 --->fabia-------dash-----: 3.96e-18 -0.999903 0e+00 -0.999931 1.7e-05 ( 2.85e-05) 0.999948 ( 2.48e-05) 2.48e-06 0.999949 --->beagle1-----beagle2--: 3.96e-18 0.291219 2.27e-154 0.291116 0.317272 ( 0.009247) 0.026156 ( 0.004038) 0.317008 0.025984 --->beagle1-----plink----: 3.96e-18 0.299335 8.59e-153 0.299320 0.317272 ( 0.009247) 0.017952 ( 0.000825) 0.317008 0.017920 --->beagle1-----germline1: 3.96e-18 -0.362754 8.52e-158 -0.362754 0.317272 ( 0.009247) 0.680026 ( 0.002725) 0.317008 0.680016 --->beagle1-----germline2: 3.96e-18 -0.185040 1.1e-128 -0.185064 0.317272 ( 0.009247) 0.502336 ( 0.003358) 0.317008 0.502358 --->beagle1-----dash-----: 3.96e-18 -0.682673 5.43e-187 -0.682675 0.317272 ( 0.009247) 0.999948 ( 2.48e-05) 0.317008 0.999949 --->beagle2-----plink----: 4.08e-18 0.007991 2.4e-37 0.008204 0.026156 ( 0.004038) 0.017952 ( 0.000825) 0.025984 0.017920 --->beagle2-----germline1: 3.96e-18 -0.653986 1.17e-213 -0.653870 0.026156 ( 0.004038) 0.680026 ( 0.002725) 0.025984 0.680016 --->beagle2-----germline2: 3.96e-18 -0.476310 1.21e-196 -0.476180 0.026156 ( 0.004038) 0.502336 ( 0.003358) 0.025984 0.502358 --->beagle2-----dash-----: 3.96e-18 -0.973942 6.9e-238 -0.973792 0.026156 ( 0.004038) 0.999948 ( 2.48e-05) 0.025984 0.999949 --->plink-------germline1: 3.96e-18 -0.662153 1.47e-236 -0.662074 0.017952 ( 0.000825) 0.680026 ( 0.002725) 0.017920 0.680016 --->plink-------germline2: 3.96e-18 -0.484436 1.65e-214 -0.484384 0.017952 ( 0.000825) 0.502336 ( 0.003358) 0.017920 0.502358 --->plink-------dash-----: 3.96e-18 -0.982002 1.42e-306 -0.981996 0.017952 ( 0.000825) 0.999948 ( 2.48e-05) 0.017920 0.999949 --->germline1---germline2: 3.96e-18 0.177716 1.29e-200 0.177690 0.680026 ( 0.002725) 0.502336 ( 0.003358) 0.680016 0.502358 --->germline1---dash-----: 3.96e-18 -0.319818 5.76e-207 -0.319921 0.680026 ( 0.002725) 0.999948 ( 2.48e-05) 0.680016 0.999949 --->germline2---dash-----: 3.96e-18 -0.497515 5.69e-217 -0.497611 0.502336 ( 0.003358) 0.999948 ( 2.48e-05) 0.502358 0.999949 ######FDR###### --->fabia-------beagle1--: 3.96e-18 -0.855032 2.61e-55 -0.805272 0.194497 ( 0.243486) 0.999768 ( 2.92e-05) 0.067913 0.999770 --->fabia-------beagle2--: 3.96e-18 -0.852866 3.58e-55 -0.802707 0.194497 ( 0.243486) 0.997204 ( 0.000576) 0.067913 0.997235 --->fabia-------plink----: 3.96e-18 -0.851412 4.18e-55 -0.801459 0.194497 ( 0.243486) 0.995956 ( 0.000547) 0.067913 0.996037 --->fabia-------germline1: 3.96e-18 -0.855210 2.56e-55 -0.805447 0.194497 ( 0.243486) 0.999944 ( 2.58e-05) 0.067913 0.999946 --->fabia-------germline2: 3.96e-18 -0.855280 2.55e-55 -0.805453 0.194497 ( 0.243486) 0.999950 ( 3.31e-05) 0.067913 0.999953 --->fabia-------dash-----: 4.58e-05 -0.177473 7.61e-07 -0.128689 0.194497 ( 0.243486) 0.323185 ( 0.003336) 0.067913 0.322935 --->beagle1-----beagle2--: 3.96e-18 0.002545 1.39e-68 0.002564 0.999768 ( 2.92e-05) 0.997204 ( 0.000576) 0.999770 0.997235 --->beagle1-----plink----: 3.96e-18 0.003795 4.13e-88 0.003812 0.999768 ( 2.92e-05) 0.995956 ( 0.000547) 0.999770 0.996037 --->beagle1-----germline1: 3.96e-18 -0.000181 3.73e-81 -0.000176 0.999768 ( 2.92e-05) 0.999944 ( 2.58e-05) 0.999770 0.999946 --->beagle1-----germline2: 3.96e-18 -0.000175 3.24e-76 -0.000182 0.999768 ( 2.92e-05) 0.999950 ( 3.31e-05) 0.999770 0.999953 --->beagle1-----dash-----: 3.96e-18 0.676683 1.88e-230 0.676583 0.999768 ( 2.92e-05) 0.323185 ( 0.003336) 0.999770 0.322935 --->beagle2-----plink----: 3.96e-18 0.001255 1.71e-43 0.001248 0.997204 ( 0.000576) 0.995956 ( 0.000547) 0.997235 0.996037 --->beagle2-----germline1: 3.96e-18 -0.002721 1.48e-70 -0.002740 0.997204 ( 0.000576) 0.999944 ( 2.58e-05) 0.997235 0.999946 --->beagle2-----germline2: 3.96e-18 -0.002729 1.33e-70 -0.002746 0.997204 ( 0.000576) 0.999950 ( 3.31e-05) 0.997235 0.999953 --->beagle2-----dash-----: 3.96e-18 0.674146 2.6e-229 0.674018 0.997204 ( 0.000576) 0.323185 ( 0.003336) 0.997235 0.322935 --->plink-------germline1: 3.96e-18 -0.003977 8.79e-89 -0.003988 0.995956 ( 0.000547) 0.999944 ( 2.58e-05) 0.996037 0.999946 --->plink-------germline2: 3.96e-18 -0.003982 4.53e-89 -0.003994 0.995956 ( 0.000547) 0.999950 ( 3.31e-05) 0.996037 0.999953 --->plink-------dash-----: 3.96e-18 0.672851 6.9e-230 0.672770 0.995956 ( 0.000547) 0.323185 ( 0.003336) 0.996037 0.322935 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.999944 ( 2.58e-05) 0.999950 ( 3.31e-05) 0.999946 0.999953 --->germline1---dash-----: 3.96e-18 0.676859 2.02e-230 0.676758 0.999944 ( 2.58e-05) 0.323185 ( 0.003336) 0.999946 0.322935 --->germline2---dash-----: 3.96e-18 0.676865 2.04e-230 0.676765 0.999950 ( 3.31e-05) 0.323185 ( 0.003336) 0.999953 0.322935 ######specifity###### --->fabia-------beagle1--: 3.96e-18 0.317256 4.62e-154 0.317255 0.999983 ( 2.85e-05) 0.682728 ( 0.009247) 0.999997 0.682992 --->fabia-------beagle2--: 3.96e-18 0.025950 7.15e-83 0.026139 0.999983 ( 2.85e-05) 0.973844 ( 0.004038) 0.999997 0.974016 --->fabia-------plink----: 3.96e-18 0.017931 1.23e-134 0.017935 0.999983 ( 2.85e-05) 0.982048 ( 0.000825) 0.999997 0.982080 --->fabia-------germline1: 3.96e-18 0.680116 2.12e-239 0.680009 0.999983 ( 2.85e-05) 0.319974 ( 0.002725) 0.999997 0.319984 --->fabia-------germline2: 3.96e-18 0.502407 2.22e-217 0.502319 0.999983 ( 2.85e-05) 0.497664 ( 0.003358) 0.999997 0.497642 --->fabia-------dash-----: 3.96e-18 0.530336 5.82e-46 0.528982 0.999983 ( 2.85e-05) 0.471001 ( 0.203829) 0.999997 0.489731 --->beagle1-----beagle2--: 3.96e-18 -0.291242 2.27e-154 -0.291116 0.682728 ( 0.009247) 0.973844 ( 0.004038) 0.682992 0.974016 --->beagle1-----plink----: 3.96e-18 -0.299330 8.59e-153 -0.299320 0.682728 ( 0.009247) 0.982048 ( 0.000825) 0.682992 0.982080 --->beagle1-----germline1: 3.96e-18 0.362742 8.52e-158 0.362754 0.682728 ( 0.009247) 0.319974 ( 0.002725) 0.682992 0.319984 --->beagle1-----germline2: 3.96e-18 0.185066 1.1e-128 0.185064 0.682728 ( 0.009247) 0.497664 ( 0.003358) 0.682992 0.497642 --->beagle1-----dash-----: 2.1e-13 0.212890 1.8e-17 0.211727 0.682728 ( 0.009247) 0.471001 ( 0.203829) 0.682992 0.489731 --->beagle2-----plink----: 4.08e-18 -0.007977 2.4e-37 -0.008204 0.973844 ( 0.004038) 0.982048 ( 0.000825) 0.974016 0.982080 --->beagle2-----germline1: 3.96e-18 0.654013 1.17e-213 0.653870 0.973844 ( 0.004038) 0.319974 ( 0.002725) 0.974016 0.319984 --->beagle2-----germline2: 3.96e-18 0.476268 1.21e-196 0.476180 0.973844 ( 0.004038) 0.497664 ( 0.003358) 0.974016 0.497642 --->beagle2-----dash-----: 3.96e-18 0.504099 4.69e-44 0.502843 0.973844 ( 0.004038) 0.471001 ( 0.203829) 0.974016 0.489731 --->plink-------germline1: 3.96e-18 0.662176 1.47e-236 0.662074 0.982048 ( 0.000825) 0.319974 ( 0.002725) 0.982080 0.319984 --->plink-------germline2: 3.96e-18 0.484464 1.65e-214 0.484384 0.982048 ( 0.000825) 0.497664 ( 0.003358) 0.982080 0.497642 --->plink-------dash-----: 3.96e-18 0.512232 1.12e-44 0.511047 0.982048 ( 0.000825) 0.471001 ( 0.203829) 0.982080 0.489731 --->germline1---germline2: 3.96e-18 -0.177716 1.29e-200 -0.177690 0.319974 ( 0.002725) 0.497664 ( 0.003358) 0.319984 0.497642 --->germline1---dash-----: 2.98e-09 -0.149762 4.15e-11 -0.151027 0.319974 ( 0.002725) 0.471001 ( 0.203829) 0.319984 0.489731 --->germline2---dash-----: 1.92e-01 0.027959 1.93e-01 0.026663 0.497664 ( 0.003358) 0.471001 ( 0.203829) 0.497642 0.489731 ######sensitivity###### --->fabia-------beagle1--: 4.6e-18 -0.105162 1.1e-10 -0.164138 0.826872 ( 0.235650) 0.991010 ( 0.029545) 0.911742 1.000000 --->fabia-------beagle2--: 1.75e-13 -0.092430 4.2e-09 -0.139966 0.826872 ( 0.235650) 0.966838 ( 0.080052) 0.911742 1.000000 --->fabia-------plink----: 1.08e-17 -0.093200 1.14e-09 -0.152903 0.826872 ( 0.235650) 0.979775 ( 0.021582) 0.911742 0.986068 --->fabia-------germline1: 3.5e-13 0.337173 1.7e-18 0.316050 0.826872 ( 0.235650) 0.510822 ( 0.214909) 0.911742 0.524318 --->fabia-------germline2: 3.92e-16 0.533081 1.42e-30 0.495631 0.826872 ( 0.235650) 0.331241 ( 0.211290) 0.911742 0.314715 --->fabia-------dash-----: 3.96e-18 -3230522 1.14e-198 -3231614 0.827 ( 0.236) 3231615 ( 33364) 0.912 3229136 --->beagle1-----beagle2--: 1e+00 0.000000 4.28e-04 0.024172 0.991010 ( 0.029545) 0.966838 ( 0.080052) 1.000000 1.000000 --->beagle1-----plink----: 2.82e-10 0.013249 6.9e-06 0.011235 0.991010 ( 0.029545) 0.979775 ( 0.021582) 1.000000 0.986068 --->beagle1-----germline1: 5.78e-18 0.484075 4.74e-41 0.480188 0.991010 ( 0.029545) 0.510822 ( 0.214909) 1.000000 0.524318 --->beagle1-----germline2: 3.96e-18 0.671549 1.55e-53 0.659769 0.991010 ( 0.029545) 0.331241 ( 0.211290) 1.000000 0.314715 --->beagle1-----dash-----: 3.96e-18 -3230522 1.14e-198 -3231614 0.991 ( 0.0295) 3231615 ( 33364) 1 3229136 --->beagle2-----plink----: 4.76e-03 0.009334 9.33e-02 -0.012937 0.966838 ( 0.080052) 0.979775 ( 0.021582) 1.000000 0.986068 --->beagle2-----germline1: 5.78e-18 0.458759 3e-37 0.456017 0.966838 ( 0.080052) 0.510822 ( 0.214909) 1.000000 0.524318 --->beagle2-----germline2: 3.96e-18 0.645225 2.82e-50 0.635597 0.966838 ( 0.080052) 0.331241 ( 0.211290) 1.000000 0.314715 --->beagle2-----dash-----: 3.96e-18 -3230522 1.14e-198 -3231614 0.967 ( 0.0801) 3231615 ( 33364) 1 3229136 --->plink-------germline1: 4.08e-18 0.469299 2.37e-40 0.468953 0.979775 ( 0.021582) 0.510822 ( 0.214909) 0.986068 0.524318 --->plink-------germline2: 3.96e-18 0.660852 5.16e-53 0.648534 0.979775 ( 0.021582) 0.331241 ( 0.211290) 0.986068 0.314715 --->plink-------dash-----: 3.96e-18 -3230522 1.14e-198 -3231614 0.98 ( 0.0216) 3231615 ( 33364) 0.986 3229136 --->germline1---germline2: 8.13e-16 0.197754 5.7e-21 0.179581 0.510822 ( 0.214909) 0.331241 ( 0.211290) 0.524318 0.314715 --->germline1---dash-----: 3.96e-18 -3230522 1.14e-198 -3231614 0.511 ( 0.215) 3231615 ( 33364) 0.524 3229136 --->germline2---dash-----: 3.96e-18 -3230522 1.14e-198 -3231615 0.331 ( 0.211) 3231615 ( 33364) 0.315 3229136 ######trueN###### --->fabia-------beagle1--: 3.96e-18 13172411 2.96e-215 13172149 2e+07 ( 604) 6826770 ( 92467) 2e+07 6829428 --->fabia-------beagle2--: 3.96e-18 10259599 3.32e-240 10261201 2e+07 ( 604) 9737718 ( 40382) 2e+07 9739446 --->fabia-------plink----: 3.96e-18 10178970 2.35e-308 10179166 2e+07 ( 604) 9819753 ( 8249) 2e+07 9820020 --->fabia-------germline1: 3.96e-18 16800232 2.52e-278 16799419 2e+07 ( 604) 3199500 ( 27247) 2e+07 3199632 --->fabia-------germline2: 3.96e-18 1.5e+07 1.62e-264 1.5e+07 2e+07 ( 604) 4976269 ( 33586) 2e+07 4976035 --->fabia-------dash-----: 3.96e-18 13230147 3.07e-259 13231276 2e+07 ( 604) 6767643 ( 33358) 2e+07 6770205 --->beagle1-----beagle2--: 3.96e-18 -2912223 2.27e-154 -2910948 6826770 ( 92467) 9737718 ( 40382) 6829428 9739446 --->beagle1-----plink----: 3.96e-18 -2993082 8.58e-153 -2992982 6826770 ( 92467) 9819753 ( 8249) 6829428 9820020 --->beagle1-----germline1: 3.96e-18 3627121 8.52e-158 3627270 6826770 ( 92467) 3199500 ( 27247) 6829428 3199632 --->beagle1-----germline2: 3.96e-18 1850291 1.1e-128 1850501 6826770 ( 92467) 4976269 ( 33586) 6829428 4976035 --->beagle1-----dash-----: 9.22e-08 59239 2.8e-08 59127 6826770 ( 92467) 6767643 ( 33358) 6829428 6770205 --->beagle2-----plink----: 4.08e-18 -79681 2.4e-37 -82035 9737718 ( 40382) 9819753 ( 8249) 9739446 9820020 --->beagle2-----germline1: 3.96e-18 6539456 1.18e-213 6538218 9737718 ( 40382) 3199500 ( 27247) 9739446 3199632 --->beagle2-----germline2: 3.96e-18 4762522 1.21e-196 4761449 9737718 ( 40382) 4976269 ( 33586) 9739446 4976035 --->beagle2-----dash-----: 3.96e-18 2969326 2.61e-175 2970075 9737718 ( 40382) 6767643 ( 33358) 9739446 6770205 --->plink-------germline1: 3.96e-18 6621135 1.45e-236 6620253 9819753 ( 8249) 3199500 ( 27247) 9820020 3199632 --->plink-------germline2: 3.96e-18 4844242 1.63e-214 4843483 9819753 ( 8249) 4976269 ( 33586) 9820020 4976035 --->plink-------dash-----: 3.96e-18 3051308 2.83e-194 3052109 9819753 ( 8249) 6767643 ( 33358) 9820020 6770205 --->germline1---germline2: 3.96e-18 -1777027 1.3e-200 -1776769 3199500 ( 27247) 4976269 ( 33586) 3199632 4976035 --->germline1---dash-----: 3.96e-18 -3570652 1.29e-178 -3568143 3199500 ( 27247) 6767643 ( 33358) 3199632 6770205 --->germline2---dash-----: 3.96e-18 -1794465 5.76e-146 -1791374 4976269 ( 33586) 6767643 ( 33358) 4976035 6770205 ######falseP###### --->fabia-------beagle1--: 3.96e-18 -3172413 4.65e-154 -3172149 339 ( 571) 3172488 ( 92466) 49.5 3169854 --->fabia-------beagle2--: 3.96e-18 -259599 7.14e-83 -261201 339 ( 571) 261540 ( 40372) 49.5 259818 --->fabia-------plink----: 3.96e-18 -178970 1.04e-134 -179166 339 ( 571) 179506 ( 8250) 49.5 179187 --->fabia-------germline1: 3.96e-18 -6800230 1.95e-239 -6799419 339 ( 571) 6799758 ( 27240) 49.5 6799718 --->fabia-------germline2: 3.96e-18 -5023672 2.06e-217 -5022650 339 ( 571) 5022989 ( 33576) 49.5 5023184 --->fabia-------dash-----: 6.64e-03 -209 4.15e-01 -48.4 339 ( 571) 388 ( 146) 49.5 397 --->beagle1-----beagle2--: 3.96e-18 2912219 2.27e-154 2910948 3172488 ( 92466) 261540 ( 40372) 3169854 259818 --->beagle1-----plink----: 3.96e-18 2993080 8.58e-153 2992982 3172488 ( 92466) 179506 ( 8250) 3169854 179187 --->beagle1-----germline1: 3.96e-18 -3627117 8.52e-158 -3627270 3172488 ( 92466) 6799758 ( 27240) 3169854 6799718 --->beagle1-----germline2: 3.96e-18 -1850299 1.1e-128 -1850501 3172488 ( 92466) 5022989 ( 33576) 3169854 5023184 --->beagle1-----dash-----: 3.96e-18 3172247 4.67e-154 3172101 3172488 ( 92466) 388 ( 146) 3169854 397 --->beagle2-----plink----: 4.08e-18 79681 2.4e-37 82035 261540 ( 40372) 179506 ( 8250) 259818 179187 --->beagle2-----germline1: 3.96e-18 -6539459 1.18e-213 -6538218 261540 ( 40372) 6799758 ( 27240) 259818 6799718 --->beagle2-----germline2: 3.96e-18 -4762521 1.21e-196 -4761449 261540 ( 40372) 5022989 ( 33576) 259818 5023184 --->beagle2-----dash-----: 3.96e-18 259463 8.15e-83 261153 261540 ( 40372) 388 ( 146) 259818 397 --->plink-------germline1: 3.96e-18 -6621134 1.45e-236 -6620253 179506 ( 8250) 6799758 ( 27240) 179187 6799718 --->plink-------germline2: 3.96e-18 -4844245 1.63e-214 -4843483 179506 ( 8250) 5022989 ( 33576) 179187 5023184 --->plink-------dash-----: 3.96e-18 178858 1.9e-134 179118 179506 ( 8250) 388 ( 146) 179187 397 --->germline1---germline2: 3.96e-18 1777024 1.3e-200 1776769 6799758 ( 27240) 5022989 ( 33576) 6799718 5023184 --->germline1---dash-----: 3.96e-18 6800184 2.16e-239 6799371 6799758 ( 27240) 388 ( 146) 6799718 397 --->germline2---dash-----: 3.96e-18 5023634 2.19e-217 5022602 5022989 ( 33576) 388 ( 146) 5023184 397 ######falseN###### --->fabia-------beagle1--: 4.66e-18 76 8.01e-12 113 119 ( 151) 6.22 ( 20.4) 66 0 --->fabia-------beagle2--: 1.44e-13 68.8 5.52e-10 96.2 119 ( 151) 22.6 ( 53.4) 66 0 --->fabia-------plink----: 1.05e-17 68 1.25e-10 105 119 ( 151) 14.3 ( 14.5) 66 10 --->fabia-------germline1: 1.4e-13 -251 2.18e-19 -240 119 ( 151) 359 ( 155) 66 348 --->fabia-------germline2: 2.13e-16 -400 6.57e-31 -372 119 ( 151) 491 ( 150) 66 514 --->fabia-------dash-----: 7.96e-12 -253 5.71e-15 -235 119 ( 151) 354 ( 168) 66 348 --->beagle1-----beagle2--: 1e+00 0.000000 2.98e-04 -16.370000 6.220000 (20.370101) 22.590000 (53.370838) 0.000000 0.000000 --->beagle1-----plink----: 2.16e-10 -10 3.24e-06 -8.06 6.22 ( 20.4) 14.3 ( 14.5) 0 10 --->beagle1-----germline1: 5.78e-18 -353 2.7e-41 -352 6.22 ( 20.4) 359 ( 155) 0 348 --->beagle1-----germline2: 3.95e-18 -494 2.13e-54 -485 6.22 ( 20.4) 491 ( 150) 0 514 --->beagle1-----dash-----: 4.07e-18 -344 7.11e-37 -348 6.22 ( 20.4) 354 ( 168) 0 348 --->beagle2-----plink----: 4.42e-03 -7 1.06e-01 8.31 22.6 ( 53.4) 14.3 ( 14.5) 0 10 --->beagle2-----germline1: 5.78e-18 -338 2.25e-37 -336 22.6 ( 53.4) 359 ( 155) 0 348 --->beagle2-----germline2: 3.95e-18 -475 2.93e-50 -468 22.6 ( 53.4) 491 ( 150) 0 514 --->beagle2-----dash-----: 7.55e-18 -332 7.2e-33 -332 22.6 ( 53.4) 354 ( 168) 0 348 --->plink-------germline1: 4.07e-18 -344 1.48e-40 -344 14.3 ( 14.5) 359 ( 155) 10 348 --->plink-------germline2: 3.95e-18 -487 9.06e-54 -477 14.3 ( 14.5) 491 ( 150) 10 514 --->plink-------dash-----: 3.96e-18 -336 3.13e-36 -340 14.3 ( 14.5) 354 ( 168) 10 348 --->germline1---germline2: 8.12e-16 -143 1.92e-20 -132 359 ( 155) 491 ( 150) 348 514 --->germline1---dash-----: 8.18e-01 7.5 8.86e-01 4.36 359 ( 155) 354 ( 168) 348 348 --->germline2---dash-----: 8.76e-06 147 4.13e-06 137 491 ( 150) 354 ( 168) 514 348 ######trueP###### --->fabia-------beagle1--: 4.66e-18 -76 8.01e-12 -113 623 ( 203) 735 ( 91.4) 668 735 --->fabia-------beagle2--: 1.44e-13 -68.6 5.52e-10 -96.2 623 ( 203) 719 ( 112) 668 716 --->fabia-------plink----: 1.05e-17 -68 1.25e-10 -105 623 ( 203) 727 ( 91.7) 668 720 --->fabia-------germline1: 1.4e-13 251 2.18e-19 240 623 ( 203) 383 ( 176) 668 372 --->fabia-------germline2: 2.13e-16 400 6.57e-31 372 623 ( 203) 251 ( 166) 668 238 --->fabia-------dash-----: 1e+00 0 1e+00 0 623 ( 203) 0 ( 0) 668 0 --->beagle1-----beagle2--: 3.2e-04 91 2.98e-04 16.4 735 ( 91.4) 719 ( 112) 735 716 --->beagle1-----plink----: 2.16e-10 10 3.24e-06 8.06 735 ( 91.4) 727 ( 91.7) 735 720 --->beagle1-----germline1: 5.78e-18 353 2.7e-41 352 735 ( 91.4) 383 ( 176) 735 372 --->beagle1-----germline2: 3.95e-18 494 2.13e-54 485 735 ( 91.4) 251 ( 166) 735 238 --->beagle1-----dash-----: 1e+00 0 1e+00 0 735 ( 91.4) 0 ( 0) 735 0 --->beagle2-----plink----: 4.42e-03 7 1.06e-01 -8.31 719 ( 112) 727 ( 91.7) 716 720 --->beagle2-----germline1: 5.78e-18 338 2.25e-37 336 719 ( 112) 383 ( 176) 716 372 --->beagle2-----germline2: 3.95e-18 475 2.93e-50 468 719 ( 112) 251 ( 166) 716 238 --->beagle2-----dash-----: 1e+00 0 1e+00 0 719 ( 112) 0 ( 0) 716 0 --->plink-------germline1: 4.07e-18 344 1.48e-40 344 727 ( 91.7) 383 ( 176) 720 372 --->plink-------germline2: 3.95e-18 487 9.06e-54 477 727 ( 91.7) 251 ( 166) 720 238 --->plink-------dash-----: 1e+00 0 1e+00 0 727 ( 91.7) 0 ( 0) 720 0 --->germline1---germline2: 8.12e-16 143 1.92e-20 132 383 ( 176) 251 ( 166) 372 238 --->germline1---dash-----: 1e+00 0 1e+00 0 383 ( 176) 0 ( 0) 372 0 --->germline2---dash-----: 1e+00 0 1e+00 0 251 ( 166) 0 ( 0) 238 0 ######MatthewsSnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.726952 ( 0.207597) 0.000000 ( 0.000000) 0.784530 0.000000 --->fabia-------beagle2--: 2.64e-17 0.770642 1.28e-57 0.724414 0.726952 ( 0.207597) 0.002538 ( 0.007289) 0.784530 0.000000 --->fabia-------plink----: 7.84e-18 0.754744 3.64e-57 0.720133 0.726952 ( 0.207597) 0.006819 ( 0.005845) 0.784530 0.006066 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.726952 ( 0.207597) 0.000000 ( 0.000000) 0.784530 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.726952 ( 0.207597) 0.000000 ( 0.000000) 0.784530 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.726952 ( 0.207597) 0.039216 ( 0.000000) 0.784530 0.039216 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.002538 ( 0.007289) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.006819 ( 0.005845) 0.000000 0.006066 --->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) 0.039216 ( 0.000000) 0.000000 0.039216 --->beagle2-----plink----: 2.71e-07 -0.006697 1.07e-05 -0.004281 0.002538 ( 0.007289) 0.006819 ( 0.005845) 0.000000 0.006066 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.002538 ( 0.007289) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.002538 ( 0.007289) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.002538 ( 0.007289) 0.039216 ( 0.000000) 0.000000 0.039216 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.006819 ( 0.005845) 0.000000 ( 0.000000) 0.006066 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.006819 ( 0.005845) 0.000000 ( 0.000000) 0.006066 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.006819 ( 0.005845) 0.039216 ( 0.000000) 0.006066 0.039216 --->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) 0.039216 ( 0.000000) 0.000000 0.039216 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.039216 ( 0.000000) 0.000000 0.039216 ######F1Snps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.708776 ( 0.214653) 0.039212 ( 0.000000) 0.774226 0.039212 --->fabia-------beagle2--: 6.21e-18 0.699682 5.15e-53 0.669453 0.708776 ( 0.214653) 0.039324 ( 0.000403) 0.774226 0.039212 --->fabia-------plink----: 6.22e-18 0.699579 5.28e-53 0.669409 0.708776 ( 0.214653) 0.039367 ( 0.000207) 0.774226 0.039285 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.708776 ( 0.214653) 0.039216 ( 0.000000) 0.774226 0.039216 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.708776 ( 0.214653) 0.039216 ( 0.000000) 0.774226 0.039216 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.708776 ( 0.214653) 0.020000 ( 0.000000) 0.774226 0.020000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.039212 ( 0.000000) 0.039324 ( 0.000403) 0.039212 0.039212 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.039212 ( 0.000000) 0.039367 ( 0.000207) 0.039212 0.039285 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.039212 ( 0.000000) 0.039216 ( 0.000000) 0.039212 0.039216 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.039212 ( 0.000000) 0.039216 ( 0.000000) 0.039212 0.039216 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.039212 ( 0.000000) 0.020000 ( 0.000000) 0.039212 0.020000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.039324 ( 0.000403) 0.039367 ( 0.000207) 0.039212 0.039285 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.039324 ( 0.000403) 0.039216 ( 0.000000) 0.039212 0.039216 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.039324 ( 0.000403) 0.039216 ( 0.000000) 0.039212 0.039216 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.039324 ( 0.000403) 0.020000 ( 0.000000) 0.039212 0.020000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.039367 ( 0.000207) 0.039216 ( 0.000000) 0.039285 0.039216 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.039367 ( 0.000207) 0.039216 ( 0.000000) 0.039285 0.039216 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.039367 ( 0.000207) 0.020000 ( 0.000000) 0.039285 0.020000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.039216 ( 0.000000) 0.039216 ( 0.000000) 0.039216 0.039216 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.039216 ( 0.000000) 0.020000 ( 0.000000) 0.039216 0.020000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.039216 ( 0.000000) 0.020000 ( 0.000000) 0.039216 0.020000 ######accuracySnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.987950 ( 0.010883) 0.019900 ( 0.000000) 0.992150 0.019900 --->fabia-------beagle2--: 3.95e-18 0.968061 8.67e-182 0.965253 0.987950 ( 0.010883) 0.022697 ( 0.010010) 0.992150 0.019900 --->fabia-------plink----: 3.95e-18 0.966331 7.11e-189 0.964058 0.987950 ( 0.010883) 0.023892 ( 0.005273) 0.992150 0.021800 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.987950 ( 0.010883) 0.020000 ( 0.000000) 0.992150 0.020000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.987950 ( 0.010883) 0.020000 ( 0.000000) 0.992150 0.020000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.987950 ( 0.010883) 1.000000 ( 0.000000) 0.992150 1.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.019900 ( 0.000000) 0.022697 ( 0.010010) 0.019900 0.019900 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.019900 ( 0.000000) 0.023892 ( 0.005273) 0.019900 0.021800 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.019900 ( 0.000000) 0.020000 ( 0.000000) 0.019900 0.020000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.019900 ( 0.000000) 0.020000 ( 0.000000) 0.019900 0.020000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.019900 ( 0.000000) 1.000000 ( 0.000000) 0.019900 1.000000 --->beagle2-----plink----: 1.31e-08 -0.001971 3.01e-01 -0.001195 0.022697 ( 0.010010) 0.023892 ( 0.005273) 0.019900 0.021800 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.022697 ( 0.010010) 0.020000 ( 0.000000) 0.019900 0.020000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.022697 ( 0.010010) 0.020000 ( 0.000000) 0.019900 0.020000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.022697 ( 0.010010) 1.000000 ( 0.000000) 0.019900 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.023892 ( 0.005273) 0.020000 ( 0.000000) 0.021800 0.020000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.023892 ( 0.005273) 0.020000 ( 0.000000) 0.021800 0.020000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.023892 ( 0.005273) 1.000000 ( 0.000000) 0.021800 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.020000 ( 0.000000) 0.020000 ( 0.000000) 0.020000 0.020000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.020000 ( 0.000000) 1.000000 ( 0.000000) 0.020000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.020000 ( 0.000000) 1.000000 ( 0.000000) 0.020000 1.000000 ######FPRSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 0.00632 ( 0.0123) 1 ( 0) 0 1 --->fabia-------beagle2--: 9.26e-19 -0.995 1.02e-178 -0.991 0.00632 ( 0.0123) 0.997 ( 0.0102) 0 1 --->fabia-------plink----: 3.78e-18 -0.992775 2.02e-185 -0.989706 0.006322 ( 0.012281) 0.996029 ( 0.005381) 0.000000 0.998163 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.006322 ( 0.012281) 1.000000 ( 0.000000) 0.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.006322 ( 0.012281) 1.000000 ( 0.000000) 0.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.006322 ( 0.012281) 0.980000 ( 0.000000) 0.000000 0.980000 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 1 ( 0) 0.997 ( 0.0102) 1 1 --->beagle1-----plink----: 1e+00 0 1e+00 0 1 ( 0) 0.996 ( 0.00538) 1 0.998 --->beagle1-----germline1: 1e+00 0 1e+00 0 1 ( 0) 1 ( 0) 1 1 --->beagle1-----germline2: 1e+00 0 1e+00 0 1 ( 0) 1 ( 0) 1 1 --->beagle1-----dash-----: 1e+00 0 1e+00 0 1 ( 0) 0.98 ( 0) 1 0.98 --->beagle2-----plink----: 1.31e-08 0.00201 3.01e-01 0.00122 0.997 ( 0.0102) 0.996 ( 0.00538) 1 0.998 --->beagle2-----germline1: 1e+00 0 1e+00 0 0.997 ( 0.0102) 1 ( 0) 1 1 --->beagle2-----germline2: 1e+00 0 1e+00 0 0.997 ( 0.0102) 1 ( 0) 1 1 --->beagle2-----dash-----: 1e+00 0 1e+00 0 0.997 ( 0.0102) 0.98 ( 0) 1 0.98 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.996029 ( 0.005381) 1.000000 ( 0.000000) 0.998163 1.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.996029 ( 0.005381) 1.000000 ( 0.000000) 0.998163 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.996029 ( 0.005381) 0.980000 ( 0.000000) 0.998163 0.980000 --->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) 0.980000 ( 0.000000) 1.000000 0.980000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.980000 ( 0.000000) 1.000000 0.980000 ######FDRSnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.146177 ( 0.238613) 0.980002 ( 0.000000) 0.000000 0.980002 --->fabia-------beagle2--: 9.26e-19 -0.928371 1.72e-57 -0.833767 0.146177 ( 0.238613) 0.979944 ( 0.000210) 0.000000 0.980002 --->fabia-------plink----: 3.78e-18 -0.928264 1.73e-57 -0.833744 0.146177 ( 0.238613) 0.979921 ( 0.000108) 0.000000 0.979964 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.146177 ( 0.238613) 0.980000 ( 0.000000) 0.000000 0.980000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.146177 ( 0.238613) 0.980000 ( 0.000000) 0.000000 0.980000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.146177 ( 0.238613) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.980002 ( 0.000000) 0.979944 ( 0.000210) 0.980002 0.980002 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.980002 ( 0.000000) 0.979921 ( 0.000108) 0.980002 0.979964 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.980002 ( 0.000000) 0.980000 ( 0.000000) 0.980002 0.980000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.980002 ( 0.000000) 0.980000 ( 0.000000) 0.980002 0.980000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.980002 ( 0.000000) 0.000000 ( 0.000000) 0.980002 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.979944 ( 0.000210) 0.979921 ( 0.000108) 0.980002 0.979964 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.979944 ( 0.000210) 0.980000 ( 0.000000) 0.980002 0.980000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.979944 ( 0.000210) 0.980000 ( 0.000000) 0.980002 0.980000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.979944 ( 0.000210) 0.000000 ( 0.000000) 0.980002 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.979921 ( 0.000108) 0.980000 ( 0.000000) 0.979964 0.980000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.979921 ( 0.000108) 0.980000 ( 0.000000) 0.979964 0.980000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.979921 ( 0.000108) 0.000000 ( 0.000000) 0.979964 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.980000 ( 0.000000) 0.980000 ( 0.000000) 0.980000 0.980000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.980000 ( 0.000000) 0.000000 ( 0.000000) 0.980000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.980000 ( 0.000000) 0.000000 ( 0.000000) 0.980000 0.000000 ######specifitySnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.993678 ( 0.012281) -0.000102 ( 0.000000) 1.000000 -0.000102 --->fabia-------beagle2--: 9.26e-19 0.994986 1.02e-178 0.990926 0.993678 ( 0.012281) 0.002752 ( 0.010214) 1.000000 -0.000102 --->fabia-------plink----: 3.78e-18 0.992775 2.02e-185 0.989706 0.993678 ( 0.012281) 0.003971 ( 0.005381) 1.000000 0.001837 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.993678 ( 0.012281) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.993678 ( 0.012281) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.993678 ( 0.012281) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 -0.000102 ( 0.000000) 0.002752 ( 0.010214) -0.000102 -0.000102 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 -0.000102 ( 0.000000) 0.003971 ( 0.005381) -0.000102 0.001837 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 -0.000102 ( 0.000000) 0.000000 ( 0.000000) -0.000102 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 -0.000102 ( 0.000000) 0.000000 ( 0.000000) -0.000102 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 -0.000102 ( 0.000000) 1.000000 ( 0.000000) -0.000102 1.000000 --->beagle2-----plink----: 1.29e-08 -0.001968 3.01e-01 -0.001219 0.002752 ( 0.010214) 0.003971 ( 0.005381) -0.000102 0.001837 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.002752 ( 0.010214) 0.000000 ( 0.000000) -0.000102 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.002752 ( 0.010214) 0.000000 ( 0.000000) -0.000102 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.002752 ( 0.010214) 1.000000 ( 0.000000) -0.000102 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.003971 ( 0.005381) 0.000000 ( 0.000000) 0.001837 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.003971 ( 0.005381) 0.000000 ( 0.000000) 0.001837 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.003971 ( 0.005381) 1.000000 ( 0.000000) 0.001837 1.000000 --->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) 1.000000 ( 0.000000) 0.000000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 1.000000 ( 0.000000) 0.000000 1.000000 ######sensitivitySnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.707300 ( 0.229442) 1.000000 ( 0.000000) 0.762500 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.707300 ( 0.229442) 1.000000 ( 0.000000) 0.762500 1.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.707300 ( 0.229442) 1.000000 ( 0.000000) 0.762500 1.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.707300 ( 0.229442) 1.000000 ( 0.000000) 0.762500 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.707300 ( 0.229442) 1.000000 ( 0.000000) 0.762500 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.707300 ( 0.229442) 0.000000 ( 0.000000) 0.762500 0.000000 --->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) 0.000000 ( 0.000000) 1.000000 0.000000 --->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) 0.000000 ( 0.000000) 1.000000 0.000000 --->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) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.000000 ( 0.000000) 1.000000 0.000000 ######trueNSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 9738 ( 120) -1 ( 0) 9800 -1 --->fabia-------beagle2--: 9.26e-19 9751 1.02e-178 9711 9738 ( 120) 27 ( 100) 9800 -1 --->fabia-------plink----: 3.77e-18 9729 2.02e-185 9699 9738 ( 120) 38.9 ( 52.7) 9800 18 --->fabia-------germline1: 1e+00 0 1e+00 0 9738 ( 120) 0 ( 0) 9800 0 --->fabia-------germline2: 1e+00 0 1e+00 0 9738 ( 120) 0 ( 0) 9800 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 9738 ( 120) 9800 ( 0) 9800 9800 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 -1.000000 ( 0.000000) 26.970000 (100.096868) -1.000000 -1.000000 --->beagle1-----plink----: 1e+00 0 1e+00 0 -1 ( 0) 38.9 ( 52.7) -1 18 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 -1.000000 ( 0.000000) 0.000000 ( 0.000000) -1.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 -1.000000 ( 0.000000) 0.000000 ( 0.000000) -1.000000 0.000000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 -1 ( 0) 9800 ( 0) -1 9800 --->beagle2-----plink----: 1.29e-08 -19.5 3.01e-01 -11.9 27 ( 100) 38.9 ( 52.7) -1 18 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 26.970000 (100.096868) 0.000000 ( 0.000000) -1.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 26.970000 (100.096868) 0.000000 ( 0.000000) -1.000000 0.000000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 27 ( 100) 9800 ( 0) -1 9800 --->plink-------germline1: 1e+00 0 1e+00 0 38.9 ( 52.7) 0 ( 0) 18 0 --->plink-------germline2: 1e+00 0 1e+00 0 38.9 ( 52.7) 0 ( 0) 18 0 --->plink-------dash-----: 1e+00 0 1e+00 0 38.9 ( 52.7) 9800 ( 0) 18 9800 --->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) 9800 ( 0) 0 9800 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 9800 ( 0) 0 9800 ######falsePSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 62 ( 120) 9801 ( 0) 0 9801 --->fabia-------beagle2--: 9.26e-19 -9751 1.02e-178 -9711 62 ( 120) 9773 ( 100) 0 9801 --->fabia-------plink----: 3.77e-18 -9729 2.02e-185 -9699 62 ( 120) 9761 ( 52.7) 0 9782 --->fabia-------germline1: 1e+00 0 1e+00 0 62 ( 120) 9800 ( 0) 0 9800 --->fabia-------germline2: 1e+00 0 1e+00 0 62 ( 120) 9800 ( 0) 0 9800 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 61.960000 (120.355611) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 9801 ( 0) 9773 ( 100) 9801 9801 --->beagle1-----plink----: 1e+00 0 1e+00 0 9801 ( 0) 9761 ( 52.7) 9801 9782 --->beagle1-----germline1: 1e+00 0 1e+00 0 9801 ( 0) 9800 ( 0) 9801 9800 --->beagle1-----germline2: 1e+00 0 1e+00 0 9801 ( 0) 9800 ( 0) 9801 9800 --->beagle1-----dash-----: 1e+00 0 1e+00 0 9801 ( 0) 0 ( 0) 9801 0 --->beagle2-----plink----: 1.29e-08 19.5 3.01e-01 11.9 9773 ( 100) 9761 ( 52.7) 9801 9782 --->beagle2-----germline1: 1e+00 0 1e+00 0 9773 ( 100) 9800 ( 0) 9801 9800 --->beagle2-----germline2: 1e+00 0 1e+00 0 9773 ( 100) 9800 ( 0) 9801 9800 --->beagle2-----dash-----: 1e+00 0 1e+00 0 9773 ( 100) 0 ( 0) 9801 0 --->plink-------germline1: 1e+00 0 1e+00 0 9761 ( 52.7) 9800 ( 0) 9782 9800 --->plink-------germline2: 1e+00 0 1e+00 0 9761 ( 52.7) 9800 ( 0) 9782 9800 --->plink-------dash-----: 1e+00 0 1e+00 0 9761 ( 52.7) 0 ( 0) 9782 0 --->germline1---germline2: 1e+00 0 1e+00 0 9800 ( 0) 9800 ( 0) 9800 9800 --->germline1---dash-----: 1e+00 0 1e+00 0 9800 ( 0) 0 ( 0) 9800 0 --->germline2---dash-----: 1e+00 0 1e+00 0 9800 ( 0) 0 ( 0) 9800 0 ######falseNSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 58.5 ( 45.9) 0 ( 0) 47.5 0 --->fabia-------beagle2--: 1e+00 0 1e+00 0 58.5 ( 45.9) 0 ( 0) 47.5 0 --->fabia-------plink----: 1e+00 0 1e+00 0 58.5 ( 45.9) 0 ( 0) 47.5 0 --->fabia-------germline1: 1e+00 0 1e+00 0 58.5 ( 45.9) 0 ( 0) 47.5 0 --->fabia-------germline2: 1e+00 0 1e+00 0 58.5 ( 45.9) 0 ( 0) 47.5 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 58.5 ( 45.9) 200 ( 0) 47.5 200 --->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 1e+00 0 0 ( 0) 200 ( 0) 0 200 --->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 1e+00 0 0 ( 0) 200 ( 0) 0 200 --->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 1e+00 0 0 ( 0) 200 ( 0) 0 200 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 200 ( 0) 0 200 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 200 ( 0) 0 200 ######truePSnps###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 141 ( 45.9) 200 ( 0) 152 200 --->fabia-------beagle2--: 1e+00 0 1e+00 0 141 ( 45.9) 200 ( 0) 152 200 --->fabia-------plink----: 1e+00 0 1e+00 0 141 ( 45.9) 200 ( 0) 152 200 --->fabia-------germline1: 1e+00 0 1e+00 0 141 ( 45.9) 200 ( 0) 152 200 --->fabia-------germline2: 1e+00 0 1e+00 0 141 ( 45.9) 200 ( 0) 152 200 --->fabia-------dash-----: 1e+00 0 1e+00 0 141 ( 45.9) 0 ( 0) 152 0 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->beagle1-----plink----: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->beagle1-----germline1: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->beagle1-----germline2: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->beagle1-----dash-----: 1e+00 0 1e+00 0 200 ( 0) 0 ( 0) 200 0 --->beagle2-----plink----: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->beagle2-----germline1: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->beagle2-----germline2: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->beagle2-----dash-----: 1e+00 0 1e+00 0 200 ( 0) 0 ( 0) 200 0 --->plink-------germline1: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->plink-------germline2: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->plink-------dash-----: 1e+00 0 1e+00 0 200 ( 0) 0 ( 0) 200 0 --->germline1---germline2: 1e+00 0 1e+00 0 200 ( 0) 200 ( 0) 200 200 --->germline1---dash-----: 1e+00 0 1e+00 0 200 ( 0) 0 ( 0) 200 0 --->germline2---dash-----: 1e+00 0 1e+00 0 200 ( 0) 0 ( 0) 200 0 ######MatthewsSample###### --->fabia-------beagle1--: 6.16e-18 0.972348 5.26e-63 0.899974 0.927037 ( 0.224300) 0.027064 ( 0.001434) 1.000000 0.027034 --->fabia-------beagle2--: 6.19e-18 0.767855 5.34e-54 0.709911 0.927037 ( 0.224300) 0.217126 ( 0.028285) 1.000000 0.219873 --->fabia-------plink----: 6.16e-18 0.947874 7.44e-62 0.875975 0.927037 ( 0.224300) 0.051063 ( 0.002304) 1.000000 0.051286 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.927037 ( 0.224300) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.927037 ( 0.224300) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.927037 ( 0.224300) 0.011928 ( 0.000000) 1.000000 0.011928 --->beagle1-----beagle2--: 3.96e-18 -0.193071 1.9e-84 -0.190062 0.027064 ( 0.001434) 0.217126 ( 0.028285) 0.027034 0.219873 --->beagle1-----plink----: 3.96e-18 -0.024016 6.62e-102 -0.023999 0.027064 ( 0.001434) 0.051063 ( 0.002304) 0.027034 0.051286 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.027064 ( 0.001434) 0.000000 ( 0.000000) 0.027034 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.027064 ( 0.001434) 0.000000 ( 0.000000) 0.027034 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.027064 ( 0.001434) 0.011928 ( 0.000000) 0.027034 0.011928 --->beagle2-----plink----: 3.96e-18 0.169255 7.96e-79 0.166063 0.217126 ( 0.028285) 0.051063 ( 0.002304) 0.219873 0.051286 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.217126 ( 0.028285) 0.000000 ( 0.000000) 0.219873 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.217126 ( 0.028285) 0.000000 ( 0.000000) 0.219873 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.217126 ( 0.028285) 0.011928 ( 0.000000) 0.219873 0.011928 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.051063 ( 0.002304) 0.000000 ( 0.000000) 0.051286 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.051063 ( 0.002304) 0.000000 ( 0.000000) 0.051286 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.051063 ( 0.002304) 0.011928 ( 0.000000) 0.051286 0.011928 --->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) 0.011928 ( 0.000000) 0.000000 0.011928 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.011928 ( 0.000000) 0.000000 0.011928 ######F1Sample###### --->fabia-------beagle1--: 6.16e-18 0.986576 4.14e-63 0.911341 0.924711 ( 0.226755) 0.013370 ( 0.000154) 1.000000 0.013363 --->fabia-------beagle2--: 6.19e-18 0.886581 5.43e-59 0.820789 0.924711 ( 0.226755) 0.103922 ( 0.016716) 1.000000 0.103006 --->fabia-------plink----: 6.16e-18 0.982747 6.25e-63 0.907664 0.924711 ( 0.226755) 0.017047 ( 0.000458) 1.000000 0.017082 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.924711 ( 0.226755) 0.011928 ( 0.000000) 1.000000 0.011928 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.924711 ( 0.226755) 0.011928 ( 0.000000) 1.000000 0.011928 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.924711 ( 0.226755) 0.006000 ( 0.000000) 1.000000 0.006000 --->beagle1-----beagle2--: 3.96e-18 -0.090670 1.96e-75 -0.090552 0.013370 ( 0.000154) 0.103922 ( 0.016716) 0.013363 0.103006 --->beagle1-----plink----: 3.96e-18 -0.003676 1.87e-93 -0.003677 0.013370 ( 0.000154) 0.017047 ( 0.000458) 0.013363 0.017082 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.013370 ( 0.000154) 0.011928 ( 0.000000) 0.013363 0.011928 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.013370 ( 0.000154) 0.011928 ( 0.000000) 0.013363 0.011928 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.013370 ( 0.000154) 0.006000 ( 0.000000) 0.013363 0.006000 --->beagle2-----plink----: 3.96e-18 0.086924 8.98e-74 0.086874 0.103922 ( 0.016716) 0.017047 ( 0.000458) 0.103006 0.017082 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.103922 ( 0.016716) 0.011928 ( 0.000000) 0.103006 0.011928 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.103922 ( 0.016716) 0.011928 ( 0.000000) 0.103006 0.011928 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.103922 ( 0.016716) 0.006000 ( 0.000000) 0.103006 0.006000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.017047 ( 0.000458) 0.011928 ( 0.000000) 0.017082 0.011928 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.017047 ( 0.000458) 0.011928 ( 0.000000) 0.017082 0.011928 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.017047 ( 0.000458) 0.006000 ( 0.000000) 0.017082 0.006000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.011928 ( 0.000000) 0.011928 ( 0.000000) 0.011928 0.011928 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.011928 ( 0.000000) 0.006000 ( 0.000000) 0.011928 0.006000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.011928 ( 0.000000) 0.006000 ( 0.000000) 0.011928 0.006000 ######accuracySample###### --->fabia-------beagle1--: 3.91e-18 0.885972 4.47e-193 0.885365 0.999725 ( 0.000719) 0.114360 ( 0.010277) 1.000000 0.114000 --->fabia-------beagle2--: 3.92e-18 0.101298 1.62e-84 0.101605 0.999725 ( 0.000719) 0.898120 ( 0.014978) 1.000000 0.900000 --->fabia-------plink----: 3.91e-18 0.692000 2.98e-156 0.692155 0.999725 ( 0.000719) 0.307570 ( 0.018994) 1.000000 0.309500 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.999725 ( 0.000719) 0.006000 ( 0.000000) 1.000000 0.006000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.999725 ( 0.000719) 0.006000 ( 0.000000) 1.000000 0.006000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.999725 ( 0.000719) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 3.92e-18 -0.783500 5.47e-170 -0.783760 0.114360 ( 0.010277) 0.898120 ( 0.014978) 0.114000 0.900000 --->beagle1-----plink----: 3.93e-18 -0.193458 5.43e-102 -0.193210 0.114360 ( 0.010277) 0.307570 ( 0.018994) 0.114000 0.309500 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.114360 ( 0.010277) 0.006000 ( 0.000000) 0.114000 0.006000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.114360 ( 0.010277) 0.006000 ( 0.000000) 0.114000 0.006000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.114360 ( 0.010277) 1.000000 ( 0.000000) 0.114000 1.000000 --->beagle2-----plink----: 3.93e-18 0.590489 1.65e-142 0.590550 0.898120 ( 0.014978) 0.307570 ( 0.018994) 0.900000 0.309500 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.898120 ( 0.014978) 0.006000 ( 0.000000) 0.900000 0.006000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.898120 ( 0.014978) 0.006000 ( 0.000000) 0.900000 0.006000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.898120 ( 0.014978) 1.000000 ( 0.000000) 0.900000 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.307570 ( 0.018994) 0.006000 ( 0.000000) 0.309500 0.006000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.307570 ( 0.018994) 0.006000 ( 0.000000) 0.309500 0.006000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.307570 ( 0.018994) 1.000000 ( 0.000000) 0.309500 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.006000 ( 0.000000) 0.006000 ( 0.000000) 0.006000 0.006000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.006000 ( 0.000000) 1.000000 ( 0.000000) 0.006000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.006000 ( 0.000000) 1.000000 ( 0.000000) 0.006000 1.000000 ######FPRSample###### --->fabia-------beagle1--: 3.9e-18 -0.891386 1.18e-193 -0.890966 2.01e-05 ( 9.88e-05) 0.890986 ( 0.010339) 0.000000 0.891348 --->fabia-------beagle2--: 3.92e-18 -0.102111 8.12e-85 -0.102274 2.01e-05 ( 9.88e-05) 0.102294 ( 0.015074) 0.000000 0.100604 --->fabia-------plink----: 3.89e-18 -0.696237 1.15e-156 -0.696590 2.01e-05 ( 9.88e-05) 0.696610 ( 0.019109) 0.000000 0.694668 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 2.01e-05 ( 9.88e-05) 1.000000 ( 0.000000) 0.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 2.01e-05 ( 9.88e-05) 1.000000 ( 0.000000) 0.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 2.01e-05 ( 9.88e-05) 0.994000 ( 0.000000) 0.000000 0.994000 --->beagle1-----beagle2--: 3.95e-18 0.788317 4.05e-170 0.788692 0.890986 ( 0.010339) 0.102294 ( 0.015074) 0.891348 0.100604 --->beagle1-----plink----: 3.95e-18 0.194603 5.43e-102 0.194376 0.890986 ( 0.010339) 0.696610 ( 0.019109) 0.891348 0.694668 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.890986 ( 0.010339) 1.000000 ( 0.000000) 0.891348 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.890986 ( 0.010339) 1.000000 ( 0.000000) 0.891348 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.890986 ( 0.010339) 0.994000 ( 0.000000) 0.891348 0.994000 --->beagle2-----plink----: 3.95e-18 -0.594101 1.52e-142 -0.594316 0.102294 ( 0.015074) 0.696610 ( 0.019109) 0.100604 0.694668 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.102294 ( 0.015074) 1.000000 ( 0.000000) 0.100604 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.102294 ( 0.015074) 1.000000 ( 0.000000) 0.100604 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.102294 ( 0.015074) 0.994000 ( 0.000000) 0.100604 0.994000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.696610 ( 0.019109) 1.000000 ( 0.000000) 0.694668 1.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.696610 ( 0.019109) 1.000000 ( 0.000000) 0.694668 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.696610 ( 0.019109) 0.994000 ( 0.000000) 0.694668 0.994000 --->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) 0.994000 ( 0.000000) 1.000000 0.994000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.994000 ( 0.000000) 1.000000 0.994000 ######FDRSample###### --->fabia-------beagle1--: 3.9e-18 -0.993263 4.79e-155 -0.987556 0.005714 ( 0.028135) 0.993270 ( 7.8e-05) 0.000000 0.993274 --->fabia-------beagle2--: 3.94e-18 -0.944444 2.2e-150 -0.939315 0.005714 ( 0.028135) 0.945029 ( 0.009195) 0.000000 0.945700 --->fabia-------plink----: 3.89e-18 -0.991383 5.93e-155 -0.985689 0.005714 ( 0.028135) 0.991403 ( 0.000233) 0.000000 0.991386 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.005714 ( 0.028135) 0.994000 ( 0.000000) 0.000000 0.994000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.005714 ( 0.028135) 0.994000 ( 0.000000) 0.000000 0.994000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.005714 ( 0.028135) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 3.96e-18 0.048209 4.23e-74 0.048241 0.993270 ( 7.8e-05) 0.945029 ( 0.009195) 0.993274 0.945700 --->beagle1-----plink----: 3.96e-18 0.001850 2.21e-93 0.001867 0.993270 ( 7.8e-05) 0.991403 ( 0.000233) 0.993274 0.991386 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.993270 ( 7.8e-05) 0.994000 ( 0.000000) 0.993274 0.994000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.993270 ( 7.8e-05) 0.994000 ( 0.000000) 0.993274 0.994000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.993270 ( 7.8e-05) 0.000000 ( 0.000000) 0.993274 0.000000 --->beagle2-----plink----: 3.96e-18 -0.046334 1.59e-72 -0.046374 0.945029 ( 0.009195) 0.991403 ( 0.000233) 0.945700 0.991386 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.945029 ( 0.009195) 0.994000 ( 0.000000) 0.945700 0.994000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.945029 ( 0.009195) 0.994000 ( 0.000000) 0.945700 0.994000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.945029 ( 0.009195) 0.000000 ( 0.000000) 0.945700 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.991403 ( 0.000233) 0.994000 ( 0.000000) 0.991386 0.994000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.991403 ( 0.000233) 0.994000 ( 0.000000) 0.991386 0.994000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.991403 ( 0.000233) 0.000000 ( 0.000000) 0.991386 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.994000 ( 0.000000) 0.994000 ( 0.000000) 0.994000 0.994000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.994000 ( 0.000000) 0.000000 ( 0.000000) 0.994000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.994000 ( 0.000000) 0.000000 ( 0.000000) 0.994000 0.000000 ######specifitySample###### --->fabia-------beagle1--: 3.9e-18 0.891386 1.18e-193 0.890966 0.999980 ( 9.88e-05) 0.109014 ( 0.010339) 1.000000 0.108652 --->fabia-------beagle2--: 3.92e-18 0.102066 8.12e-85 0.102274 0.999980 ( 9.88e-05) 0.897706 ( 0.015074) 1.000000 0.899396 --->fabia-------plink----: 3.89e-18 0.696229 1.15e-156 0.696590 0.999980 ( 9.88e-05) 0.303390 ( 0.019109) 1.000000 0.305332 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.999980 ( 9.88e-05) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.999980 ( 9.88e-05) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.999980 ( 9.88e-05) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 3.94e-18 -0.788320 4.05e-170 -0.788692 0.109014 ( 0.010339) 0.897706 ( 0.015074) 0.108652 0.899396 --->beagle1-----plink----: 3.95e-18 -0.194646 5.43e-102 -0.194376 0.109014 ( 0.010339) 0.303390 ( 0.019109) 0.108652 0.305332 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.109014 ( 0.010339) 0.000000 ( 0.000000) 0.108652 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.109014 ( 0.010339) 0.000000 ( 0.000000) 0.108652 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.109014 ( 0.010339) 1.000000 ( 0.000000) 0.108652 1.000000 --->beagle2-----plink----: 3.95e-18 0.594088 1.52e-142 0.594316 0.897706 ( 0.015074) 0.303390 ( 0.019109) 0.899396 0.305332 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.897706 ( 0.015074) 0.000000 ( 0.000000) 0.899396 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.897706 ( 0.015074) 0.000000 ( 0.000000) 0.899396 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.897706 ( 0.015074) 1.000000 ( 0.000000) 0.899396 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.303390 ( 0.019109) 0.000000 ( 0.000000) 0.305332 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.303390 ( 0.019109) 0.000000 ( 0.000000) 0.305332 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.303390 ( 0.019109) 1.000000 ( 0.000000) 0.305332 1.000000 --->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) 1.000000 ( 0.000000) 0.000000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 1.000000 ( 0.000000) 0.000000 1.000000 ######sensitivitySample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.915000 ( 0.239827) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 2.65e-02 -0.051667 0.915000 ( 0.239827) 0.966667 ( 0.091747) 1.000000 1.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.915000 ( 0.239827) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.915000 ( 0.239827) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.915000 ( 0.239827) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.915000 ( 0.239827) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.966667 ( 0.091747) 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) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.966667 ( 0.091747) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.966667 ( 0.091747) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.966667 ( 0.091747) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.966667 ( 0.091747) 0.000000 ( 0.000000) 1.000000 0.000000 --->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) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.000000 ( 0.000000) 1.000000 0.000000 ######trueNSample###### --->fabia-------beagle1--: 3.89e-18 1886 3.76e-226 1886 1994 ( 0.197) 108 ( 10.3) 1994 108 --->fabia-------beagle2--: 3.92e-18 1101 8.02e-187 1102 1994 ( 0.197) 892 ( 15) 1994 894 --->fabia-------plink----: 3.89e-18 1692 4.48e-195 1692 1994 ( 0.197) 302 ( 19) 1994 304 --->fabia-------germline1: 1e+00 0 1e+00 0 1994 ( 0.197) 0 ( 0) 1994 0 --->fabia-------germline2: 1e+00 0 1e+00 0 1994 ( 0.197) 0 ( 0) 1994 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 1994 ( 0.197) 994 ( 0) 1994 994 --->beagle1-----beagle2--: 3.92e-18 -784 4.05e-170 -784 108 ( 10.3) 892 ( 15) 108 894 --->beagle1-----plink----: 3.93e-18 -193 5.43e-102 -193 108 ( 10.3) 302 ( 19) 108 304 --->beagle1-----germline1: 1e+00 0 1e+00 0 108 ( 10.3) 0 ( 0) 108 0 --->beagle1-----germline2: 1e+00 0 1e+00 0 108 ( 10.3) 0 ( 0) 108 0 --->beagle1-----dash-----: 1e+00 0 1e+00 0 108 ( 10.3) 994 ( 0) 108 994 --->beagle2-----plink----: 3.93e-18 591 1.52e-142 591 892 ( 15) 302 ( 19) 894 304 --->beagle2-----germline1: 1e+00 0 1e+00 0 892 ( 15) 0 ( 0) 894 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 892 ( 15) 0 ( 0) 894 0 --->beagle2-----dash-----: 1e+00 0 1e+00 0 892 ( 15) 994 ( 0) 894 994 --->plink-------germline1: 1e+00 0 1e+00 0 302 ( 19) 0 ( 0) 304 0 --->plink-------germline2: 1e+00 0 1e+00 0 302 ( 19) 0 ( 0) 304 0 --->plink-------dash-----: 1e+00 0 1e+00 0 302 ( 19) 994 ( 0) 304 994 --->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) 994 ( 0) 0 994 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 994 ( 0) 0 994 ######falsePSample###### --->fabia-------beagle1--: 3.89e-18 -886 1.16e-193 -886 0.04 ( 0.197) 886 ( 10.3) 0 886 --->fabia-------beagle2--: 3.92e-18 -101 8.27e-85 -102 0.04 ( 0.197) 102 ( 15) 0 100 --->fabia-------plink----: 3.89e-18 -692 1.16e-156 -692 0.04 ( 0.197) 692 ( 19) 0 690 --->fabia-------germline1: 1e+00 0 1e+00 0 0.04 ( 0.197) 994 ( 0) 0 994 --->fabia-------germline2: 1e+00 0 1e+00 0 0.04 ( 0.197) 994 ( 0) 0 994 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.040000 ( 0.196946) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 3.92e-18 784 4.05e-170 784 886 ( 10.3) 102 ( 15) 886 100 --->beagle1-----plink----: 3.93e-18 193 5.43e-102 193 886 ( 10.3) 692 ( 19) 886 690 --->beagle1-----germline1: 1e+00 0 1e+00 0 886 ( 10.3) 994 ( 0) 886 994 --->beagle1-----germline2: 1e+00 0 1e+00 0 886 ( 10.3) 994 ( 0) 886 994 --->beagle1-----dash-----: 1e+00 0 1e+00 0 886 ( 10.3) 0 ( 0) 886 0 --->beagle2-----plink----: 3.93e-18 -591 1.52e-142 -591 102 ( 15) 692 ( 19) 100 690 --->beagle2-----germline1: 1e+00 0 1e+00 0 102 ( 15) 994 ( 0) 100 994 --->beagle2-----germline2: 1e+00 0 1e+00 0 102 ( 15) 994 ( 0) 100 994 --->beagle2-----dash-----: 1e+00 0 1e+00 0 102 ( 15) 0 ( 0) 100 0 --->plink-------germline1: 1e+00 0 1e+00 0 692 ( 19) 994 ( 0) 690 994 --->plink-------germline2: 1e+00 0 1e+00 0 692 ( 19) 994 ( 0) 690 994 --->plink-------dash-----: 1e+00 0 1e+00 0 692 ( 19) 0 ( 0) 690 0 --->germline1---germline2: 1e+00 0 1e+00 0 994 ( 0) 994 ( 0) 994 994 --->germline1---dash-----: 1e+00 0 1e+00 0 994 ( 0) 0 ( 0) 994 0 --->germline2---dash-----: 1e+00 0 1e+00 0 994 ( 0) 0 ( 0) 994 0 ######falseNSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.510000 ( 1.438960) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------beagle2--: 1e+00 0.000000 2.65e-02 0.310000 0.510000 ( 1.438960) 0.200000 ( 0.550482) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.510000 ( 1.438960) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.510000 ( 1.438960) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.510000 ( 1.438960) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0 1e+00 0 0.51 ( 1.44) 6 ( 0) 0 6 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.200000 ( 0.550482) 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 1e+00 0 0 ( 0) 6 ( 0) 0 6 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.200000 ( 0.550482) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.200000 ( 0.550482) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.200000 ( 0.550482) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 0.2 ( 0.55) 6 ( 0) 0 6 --->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 1e+00 0 0 ( 0) 6 ( 0) 0 6 --->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) 6 ( 0) 0 6 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 6 ( 0) 0 6 ######truePSample###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 5.49 ( 1.44) 6 ( 0) 6 6 --->fabia-------beagle2--: 1e+00 0 2.65e-02 -0.31 5.49 ( 1.44) 5.8 ( 0.55) 6 6 --->fabia-------plink----: 1e+00 0 1e+00 0 5.49 ( 1.44) 6 ( 0) 6 6 --->fabia-------germline1: 1e+00 0 1e+00 0 5.49 ( 1.44) 6 ( 0) 6 6 --->fabia-------germline2: 1e+00 0 1e+00 0 5.49 ( 1.44) 6 ( 0) 6 6 --->fabia-------dash-----: 3.88e-18 -719 4.62e-197 -719 5.49 ( 1.44) 724 ( 7.49) 6 725 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 6 ( 0) 5.8 ( 0.55) 6 6 --->beagle1-----plink----: 1e+00 0 1e+00 0 6 ( 0) 6 ( 0) 6 6 --->beagle1-----germline1: 1e+00 0 1e+00 0 6 ( 0) 6 ( 0) 6 6 --->beagle1-----germline2: 1e+00 0 1e+00 0 6 ( 0) 6 ( 0) 6 6 --->beagle1-----dash-----: 1e+00 0 1e+00 0 6 ( 0) 724 ( 7.49) 6 725 --->beagle2-----plink----: 1e+00 0 1e+00 0 5.8 ( 0.55) 6 ( 0) 6 6 --->beagle2-----germline1: 1e+00 0 1e+00 0 5.8 ( 0.55) 6 ( 0) 6 6 --->beagle2-----germline2: 1e+00 0 1e+00 0 5.8 ( 0.55) 6 ( 0) 6 6 --->beagle2-----dash-----: 3.87e-18 -718 1.07e-197 -718 5.8 ( 0.55) 724 ( 7.49) 6 725 --->plink-------germline1: 1e+00 0 1e+00 0 6 ( 0) 6 ( 0) 6 6 --->plink-------germline2: 1e+00 0 1e+00 0 6 ( 0) 6 ( 0) 6 6 --->plink-------dash-----: 1e+00 0 1e+00 0 6 ( 0) 724 ( 7.49) 6 725 --->germline1---germline2: 1e+00 0 1e+00 0 6 ( 0) 6 ( 0) 6 6 --->germline1---dash-----: 1e+00 0 1e+00 0 6 ( 0) 724 ( 7.49) 6 725 --->germline2---dash-----: 1e+00 0 1e+00 0 6 ( 0) 724 ( 7.49) 6 725