Results: Wilcoxon-Rank-Sum Wilcoxon-median t-test t-test-mean mean1 (std) mean2 (std) median1 median2 ######Matthews###### --->fabia-------beagle1--: 1.58e-13 0.469829 3.7e-26 0.458587 0.475712 ( 0.317543) 0.017125 ( 0.002158) 0.578350 0.017623 --->fabia-------beagle2--: 1.46e-13 0.428419 5.83e-24 0.415491 0.475712 ( 0.317543) 0.060221 ( 0.021717) 0.578350 0.069087 --->fabia-------plink----: 1.58e-13 0.399321 1.98e-21 0.387169 0.475712 ( 0.317543) 0.088543 ( 0.003299) 0.578350 0.088654 --->fabia-------germline1: 7.83e-14 0.481995 5.91e-27 0.471495 0.475712 ( 0.317543) 0.004218 ( 0.003130) 0.578350 0.005025 --->fabia-------germline2: 3.55e-14 0.484359 5.47e-27 0.473284 0.475712 ( 0.317543) 0.002428 ( 0.004457) 0.578350 0.002863 --->fabia-------dash-----: 1.58e-13 0.486398 3.57e-27 0.475358 0.475712 ( 0.317543) 0.000355 ( 6.9e-05) 0.578350 0.000365 --->beagle1-----beagle2--: 1.77e-17 -0.046830 1.75e-38 -0.043096 0.017125 ( 0.002158) 0.060221 ( 0.021717) 0.017623 0.069087 --->beagle1-----plink----: 3.96e-18 -0.071202 2.27e-131 -0.071418 0.017125 ( 0.002158) 0.088543 ( 0.003299) 0.017623 0.088654 --->beagle1-----germline1: 3.96e-18 0.012713 1.51e-58 0.012907 0.017125 ( 0.002158) 0.004218 ( 0.003130) 0.017623 0.005025 --->beagle1-----germline2: 3.96e-18 0.014672 2.2e-51 0.014697 0.017125 ( 0.002158) 0.002428 ( 0.004457) 0.017623 0.002863 --->beagle1-----dash-----: 3.96e-18 0.017240 1.03e-90 0.016770 0.017125 ( 0.002158) 0.000355 ( 6.9e-05) 0.017623 0.000365 --->beagle2-----plink----: 3.96e-18 -0.024407 2.35e-23 -0.028322 0.060221 ( 0.021717) 0.088543 ( 0.003299) 0.069087 0.088654 --->beagle2-----germline1: 5.35e-18 0.059825 2.45e-46 0.056004 0.060221 ( 0.021717) 0.004218 ( 0.003130) 0.069087 0.005025 --->beagle2-----germline2: 5.35e-18 0.061482 3.04e-47 0.057793 0.060221 ( 0.021717) 0.002428 ( 0.004457) 0.069087 0.002863 --->beagle2-----dash-----: 4.74e-18 0.063953 2.87e-48 0.059867 0.060221 ( 0.021717) 0.000355 ( 6.9e-05) 0.069087 0.000365 --->plink-------germline1: 3.96e-18 0.084233 8.25e-135 0.084325 0.088543 ( 0.003299) 0.004218 ( 0.003130) 0.088654 0.005025 --->plink-------germline2: 3.96e-18 0.086059 3.37e-125 0.086115 0.088543 ( 0.003299) 0.002428 ( 0.004457) 0.088654 0.002863 --->plink-------dash-----: 3.96e-18 0.088270 1.2e-143 0.088188 0.088543 ( 0.003299) 0.000355 ( 6.9e-05) 0.088654 0.000365 --->germline1---germline2: 1.29e-05 0.001657 2e-06 0.001789 0.004218 ( 0.003130) 0.002428 ( 0.004457) 0.005025 0.002863 --->germline1---dash-----: 8.59e-15 0.004102 2.88e-22 0.003863 0.004218 ( 0.003130) 0.000355 ( 6.9e-05) 0.005025 0.000365 --->germline2---dash-----: 9.72e-06 0.002266 8.45e-06 0.002073 0.002428 ( 0.004457) 0.000355 ( 6.9e-05) 0.002863 0.000365 ######F1###### --->fabia-------beagle1--: 1.58e-13 0.438401 1.32e-25 0.444830 0.445737 ( 0.313409) 0.000907 ( 8.96e-05) 0.538315 0.000914 --->fabia-------beagle2--: 9.95e-14 0.437742 3.63e-25 0.436518 0.445737 ( 0.313409) 0.009219 ( 0.003442) 0.538315 0.010096 --->fabia-------plink----: 1.58e-13 0.423321 1.3e-24 0.429705 0.445737 ( 0.313409) 0.016032 ( 0.001079) 0.538315 0.016009 --->fabia-------germline1: 1.58e-13 0.438641 1.22e-25 0.445370 0.445737 ( 0.313409) 0.000367 ( 5.79e-05) 0.538315 0.000371 --->fabia-------germline2: 1.58e-13 0.439016 1.22e-25 0.445381 0.445737 ( 0.313409) 0.000356 ( 0.000112) 0.538315 0.000362 --->fabia-------dash-----: 3.95e-04 0.117588 1.64e-04 0.122938 0.445737 ( 0.313409) 0.322799 ( 0.002985) 0.538315 0.322681 --->beagle1-----beagle2--: 5.68e-18 -0.008767 6.51e-44 -0.008313 0.000907 ( 8.96e-05) 0.009219 ( 0.003442) 0.000914 0.010096 --->beagle1-----plink----: 3.96e-18 -0.015112 7.74e-117 -0.015125 0.000907 ( 8.96e-05) 0.016032 ( 0.001079) 0.000914 0.016009 --->beagle1-----germline1: 3.96e-18 0.000527 6.77e-79 0.000539 0.000907 ( 8.96e-05) 0.000367 ( 5.79e-05) 0.000914 0.000371 --->beagle1-----germline2: 3.96e-18 0.000551 2.24e-64 0.000551 0.000907 ( 8.96e-05) 0.000356 ( 0.000112) 0.000914 0.000362 --->beagle1-----dash-----: 3.96e-18 -0.321901 2.2e-203 -0.321893 0.000907 ( 8.96e-05) 0.322799 ( 0.002985) 0.000914 0.322681 --->beagle2-----plink----: 3.96e-18 -0.006381 1.23e-35 -0.006812 0.009219 ( 0.003442) 0.016032 ( 0.001079) 0.010096 0.016009 --->beagle2-----germline1: 4.74e-18 0.009333 9.17e-46 0.008852 0.009219 ( 0.003442) 0.000367 ( 5.79e-05) 0.010096 0.000371 --->beagle2-----germline2: 4.74e-18 0.009300 7.19e-46 0.008863 0.009219 ( 0.003442) 0.000356 ( 0.000112) 0.010096 0.000362 --->beagle2-----dash-----: 3.96e-18 -0.313389 4.3e-186 -0.313580 0.009219 ( 0.003442) 0.322799 ( 0.002985) 0.010096 0.322681 --->plink-------germline1: 3.96e-18 0.015679 4.71e-118 0.015665 0.016032 ( 0.001079) 0.000367 ( 5.79e-05) 0.016009 0.000371 --->plink-------germline2: 3.96e-18 0.015684 2.3e-118 0.015676 0.016032 ( 0.001079) 0.000356 ( 0.000112) 0.016009 0.000362 --->plink-------dash-----: 3.96e-18 -0.306828 5.39e-201 -0.306767 0.016032 ( 0.001079) 0.322799 ( 0.002985) 0.016009 0.322681 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000367 ( 5.79e-05) 0.000356 ( 0.000112) 0.000371 0.000362 --->germline1---dash-----: 3.96e-18 -0.322443 2.22e-203 -0.322432 0.000367 ( 5.79e-05) 0.322799 ( 0.002985) 0.000371 0.322681 --->germline2---dash-----: 3.96e-18 -0.322416 1.29e-203 -0.322443 0.000356 ( 0.000112) 0.322799 ( 0.002985) 0.000362 0.322681 ######accuracy###### --->fabia-------beagle1--: 3.96e-18 0.318562 1.57e-156 0.318642 0.999938 ( 3.18e-05) 0.681295 ( 0.008769) 0.999936 0.681550 --->fabia-------beagle2--: 3.96e-18 0.026395 2.55e-88 0.026556 0.999938 ( 3.18e-05) 0.973382 ( 0.003597) 0.999936 0.973806 --->fabia-------plink----: 3.96e-18 0.017997 5.13e-131 0.017993 0.999938 ( 3.18e-05) 0.981944 ( 0.000893) 0.999936 0.981873 --->fabia-------germline1: 3.96e-18 0.679862 5.5e-244 0.679845 0.999938 ( 3.18e-05) 0.320092 ( 0.002446) 0.999936 0.320229 --->fabia-------germline2: 3.96e-18 0.502358 3.37e-222 0.502258 0.999938 ( 3.18e-05) 0.497680 ( 0.002997) 0.999936 0.497585 --->fabia-------dash-----: 3.96e-18 0.322627 2.28e-203 0.322664 0.999938 ( 3.18e-05) 0.677273 ( 0.002984) 0.999936 0.677380 --->beagle1-----beagle2--: 3.96e-18 -0.291993 3.61e-157 -0.292086 0.681295 ( 0.008769) 0.973382 ( 0.003597) 0.681550 0.973806 --->beagle1-----plink----: 3.96e-18 -0.300486 1.69e-155 -0.300649 0.681295 ( 0.008769) 0.981944 ( 0.000893) 0.681550 0.981873 --->beagle1-----germline1: 3.96e-18 0.361458 1.26e-159 0.361203 0.681295 ( 0.008769) 0.320092 ( 0.002446) 0.681550 0.320229 --->beagle1-----germline2: 3.96e-18 0.183940 1.06e-130 0.183615 0.681295 ( 0.008769) 0.497680 ( 0.002997) 0.681550 0.497585 --->beagle1-----dash-----: 7.52e-05 0.004056 3.41e-05 0.004022 0.681295 ( 0.008769) 0.677273 ( 0.002984) 0.681550 0.677380 --->beagle2-----plink----: 3.96e-18 -0.008458 2.36e-42 -0.008563 0.973382 ( 0.003597) 0.981944 ( 0.000893) 0.973806 0.981873 --->beagle2-----germline1: 3.96e-18 0.653390 4.96e-217 0.653290 0.973382 ( 0.003597) 0.320092 ( 0.002446) 0.973806 0.320229 --->beagle2-----germline2: 3.96e-18 0.475846 4.36e-200 0.475702 0.973382 ( 0.003597) 0.497680 ( 0.002997) 0.973806 0.497585 --->beagle2-----dash-----: 3.96e-18 0.296337 1.75e-179 0.296109 0.973382 ( 0.003597) 0.677273 ( 0.002984) 0.973806 0.677380 --->plink-------germline1: 3.96e-18 0.661887 1.39e-242 0.661852 0.981944 ( 0.000893) 0.320092 ( 0.002446) 0.981873 0.320229 --->plink-------germline2: 3.96e-18 0.484381 6.44e-222 0.484265 0.981944 ( 0.000893) 0.497680 ( 0.002997) 0.981873 0.497585 --->plink-------dash-----: 3.96e-18 0.304613 1.99e-197 0.304671 0.981944 ( 0.000893) 0.677273 ( 0.002984) 0.981873 0.677380 --->germline1---germline2: 3.96e-18 -0.177617 9.75e-202 -0.177588 0.320092 ( 0.002446) 0.497680 ( 0.002997) 0.320229 0.497585 --->germline1---dash-----: 3.96e-18 -0.357223 2.95e-184 -0.357181 0.320092 ( 0.002446) 0.677273 ( 0.002984) 0.320229 0.677380 --->germline2---dash-----: 3.96e-18 -0.179737 1.25e-152 -0.179593 0.497680 ( 0.002997) 0.677273 ( 0.002984) 0.497585 0.677380 ######FPR###### --->fabia-------beagle1--: 3.96e-18 -0.318648 1.47e-156 -0.318726 2.25e-05 ( 4.1e-05) 0.318748 ( 0.008770) 2e-07 0.318497 --->fabia-------beagle2--: 3.96e-18 -0.026429 2.24e-88 -0.026573 2.25e-05 ( 4.1e-05) 0.026596 ( 0.003596) 2e-07 0.026186 --->fabia-------plink----: 3.96e-18 -0.018038 2.71e-131 -0.018034 2.25e-05 ( 4.1e-05) 0.018057 ( 0.000893) 2e-07 0.018129 --->fabia-------germline1: 3.96e-18 -0.679955 5.1e-244 -0.679963 2.25e-05 ( 4.1e-05) 0.679985 ( 0.002446) 2e-07 0.679872 --->fabia-------germline2: 3.96e-18 -0.502389 2.77e-222 -0.502313 2.25e-05 ( 4.1e-05) 0.502336 ( 0.002992) 2e-07 0.502433 --->fabia-------dash-----: 3.96e-18 -0.999773 0e+00 -0.999800 2.25e-05 ( 4.1e-05) 0.999823 ( 3.45e-05) 2e-07 0.999817 --->beagle1-----beagle2--: 3.96e-18 0.292046 3.58e-157 0.292153 0.318748 ( 0.008770) 0.026596 ( 0.003596) 0.318497 0.026186 --->beagle1-----plink----: 3.96e-18 0.300529 1.67e-155 0.300691 0.318748 ( 0.008770) 0.018057 ( 0.000893) 0.318497 0.018129 --->beagle1-----germline1: 3.96e-18 -0.361484 1.26e-159 -0.361237 0.318748 ( 0.008770) 0.679985 ( 0.002446) 0.318497 0.679872 --->beagle1-----germline2: 3.96e-18 -0.183928 1.07e-130 -0.183588 0.318748 ( 0.008770) 0.502336 ( 0.002992) 0.318497 0.502433 --->beagle1-----dash-----: 3.96e-18 -0.681162 3.55e-189 -0.681074 0.318748 ( 0.008770) 0.999823 ( 3.45e-05) 0.318497 0.999817 --->beagle2-----plink----: 3.96e-18 0.008420 2.74e-42 0.008539 0.026596 ( 0.003596) 0.018057 ( 0.000893) 0.026186 0.018129 --->beagle2-----germline1: 3.96e-18 -0.653481 4.88e-217 -0.653390 0.026596 ( 0.003596) 0.679985 ( 0.002446) 0.026186 0.679872 --->beagle2-----germline2: 3.96e-18 -0.475865 4.15e-200 -0.475740 0.026596 ( 0.003596) 0.502336 ( 0.002992) 0.026186 0.502433 --->beagle2-----dash-----: 3.96e-18 -0.973382 8.15e-243 -0.973227 0.026596 ( 0.003596) 0.999823 ( 3.45e-05) 0.026186 0.999817 --->plink-------germline1: 3.96e-18 -0.661957 1.41e-242 -0.661929 0.018057 ( 0.000893) 0.679985 ( 0.002446) 0.018129 0.679872 --->plink-------germline2: 3.96e-18 -0.484379 5.72e-222 -0.484279 0.018057 ( 0.000893) 0.502336 ( 0.002992) 0.018129 0.502433 --->plink-------dash-----: 3.96e-18 -0.981744 3.62e-303 -0.981766 0.018057 ( 0.000893) 0.999823 ( 3.45e-05) 0.018129 0.999817 --->germline1---germline2: 3.96e-18 0.177677 1.06e-201 0.177650 0.679985 ( 0.002446) 0.502336 ( 0.002992) 0.679872 0.502433 --->germline1---dash-----: 3.96e-18 -0.319821 1.32e-211 -0.319837 0.679985 ( 0.002446) 0.999823 ( 3.45e-05) 0.679872 0.999817 --->germline2---dash-----: 3.96e-18 -0.497391 5.83e-222 -0.497487 0.502336 ( 0.002992) 0.999823 ( 3.45e-05) 0.502433 0.999817 ######FDR###### --->fabia-------beagle1--: 3.95e-18 -0.860210 5.91e-58 -0.834131 0.165416 ( 0.235946) 0.999546 ( 4.48e-05) 0.004964 0.999543 --->fabia-------beagle2--: 3.96e-18 -0.855748 1.06e-57 -0.829948 0.165416 ( 0.235946) 0.995364 ( 0.001732) 0.004964 0.994926 --->fabia-------plink----: 3.96e-18 -0.852809 1.39e-57 -0.826503 0.165416 ( 0.235946) 0.991918 ( 0.000548) 0.004964 0.991930 --->fabia-------germline1: 3.96e-18 -0.860581 5.73e-58 -0.834401 0.165416 ( 0.235946) 0.999816 ( 2.9e-05) 0.004964 0.999814 --->fabia-------germline2: 3.96e-18 -0.860472 5.72e-58 -0.834406 0.165416 ( 0.235946) 0.999822 ( 5.59e-05) 0.004964 0.999819 --->fabia-------dash-----: 5.22e-09 -0.183419 1.61e-09 -0.157311 0.165416 ( 0.235946) 0.322727 ( 0.002984) 0.004964 0.322620 --->beagle1-----beagle2--: 5.68e-18 0.004399 6.8e-44 0.004183 0.999546 ( 4.48e-05) 0.995364 ( 0.001732) 0.999543 0.994926 --->beagle1-----plink----: 3.96e-18 0.007633 1.64e-116 0.007628 0.999546 ( 4.48e-05) 0.991918 ( 0.000548) 0.999543 0.991930 --->beagle1-----germline1: 3.96e-18 -0.000295 6.65e-79 -0.000270 0.999546 ( 4.48e-05) 0.999816 ( 2.9e-05) 0.999543 0.999814 --->beagle1-----germline2: 3.96e-18 -0.000235 2.2e-64 -0.000275 0.999546 ( 4.48e-05) 0.999822 ( 5.59e-05) 0.999543 0.999819 --->beagle1-----dash-----: 3.96e-18 0.676862 3.49e-235 0.676820 0.999546 ( 4.48e-05) 0.322727 ( 0.002984) 0.999543 0.322620 --->beagle2-----plink----: 3.96e-18 0.003239 8.91e-36 0.003445 0.995364 ( 0.001732) 0.991918 ( 0.000548) 0.994926 0.991930 --->beagle2-----germline1: 4.74e-18 -0.004698 9.81e-46 -0.004453 0.995364 ( 0.001732) 0.999816 ( 2.9e-05) 0.994926 0.999814 --->beagle2-----germline2: 4.74e-18 -0.004703 7.7e-46 -0.004458 0.995364 ( 0.001732) 0.999822 ( 5.59e-05) 0.994926 0.999819 --->beagle2-----dash-----: 3.96e-18 0.672551 4.58e-227 0.672637 0.995364 ( 0.001732) 0.322727 ( 0.002984) 0.994926 0.322620 --->plink-------germline1: 3.96e-18 -0.007893 1.02e-117 -0.007898 0.991918 ( 0.000548) 0.999816 ( 2.9e-05) 0.991930 0.999814 --->plink-------germline2: 3.96e-18 -0.007898 4.97e-118 -0.007904 0.991918 ( 0.000548) 0.999822 ( 5.59e-05) 0.991930 0.999819 --->plink-------dash-----: 3.96e-18 0.669266 7.95e-233 0.669191 0.991918 ( 0.000548) 0.322727 ( 0.002984) 0.991930 0.322620 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.999816 ( 2.9e-05) 0.999822 ( 5.59e-05) 0.999814 0.999819 --->germline1---dash-----: 3.96e-18 0.677088 3e-235 0.677089 0.999816 ( 2.9e-05) 0.322727 ( 0.002984) 0.999814 0.322620 --->germline2---dash-----: 3.96e-18 0.677094 4.05e-235 0.677095 0.999822 ( 5.59e-05) 0.322727 ( 0.002984) 0.999819 0.322620 ######specifity###### --->fabia-------beagle1--: 3.96e-18 0.318649 1.47e-156 0.318726 0.999977 ( 4.1e-05) 0.681252 ( 0.008770) 1.000000 0.681503 --->fabia-------beagle2--: 3.96e-18 0.026411 2.24e-88 0.026573 0.999977 ( 4.1e-05) 0.973404 ( 0.003596) 1.000000 0.973814 --->fabia-------plink----: 3.96e-18 0.018037 2.71e-131 0.018034 0.999977 ( 4.1e-05) 0.981943 ( 0.000893) 1.000000 0.981871 --->fabia-------germline1: 3.96e-18 0.679981 5.1e-244 0.679963 0.999977 ( 4.1e-05) 0.320015 ( 0.002446) 1.000000 0.320128 --->fabia-------germline2: 3.96e-18 0.502413 2.77e-222 0.502313 0.999977 ( 4.1e-05) 0.497664 ( 0.002992) 1.000000 0.497567 --->fabia-------dash-----: 3.96e-18 0.178465 2.2e-23 0.191511 0.999977 ( 4.1e-05) 0.808467 ( 0.145979) 1.000000 0.847180 --->beagle1-----beagle2--: 3.96e-18 -0.292052 3.58e-157 -0.292153 0.681252 ( 0.008770) 0.973404 ( 0.003596) 0.681503 0.973814 --->beagle1-----plink----: 3.96e-18 -0.300535 1.67e-155 -0.300691 0.681252 ( 0.008770) 0.981943 ( 0.000893) 0.681503 0.981871 --->beagle1-----germline1: 3.96e-18 0.361455 1.26e-159 0.361237 0.681252 ( 0.008770) 0.320015 ( 0.002446) 0.681503 0.320128 --->beagle1-----germline2: 3.96e-18 0.183917 1.07e-130 0.183588 0.681252 ( 0.008770) 0.497664 ( 0.002992) 0.681503 0.497567 --->beagle1-----dash-----: 4.95e-11 -0.139769 6.85e-14 -0.127215 0.681252 ( 0.008770) 0.808467 ( 0.145979) 0.681503 0.847180 --->beagle2-----plink----: 3.96e-18 -0.008424 2.74e-42 -0.008539 0.973404 ( 0.003596) 0.981943 ( 0.000893) 0.973814 0.981871 --->beagle2-----germline1: 3.96e-18 0.653491 4.88e-217 0.653390 0.973404 ( 0.003596) 0.320015 ( 0.002446) 0.973814 0.320128 --->beagle2-----germline2: 3.96e-18 0.475882 4.15e-200 0.475740 0.973404 ( 0.003596) 0.497664 ( 0.002992) 0.973814 0.497567 --->beagle2-----dash-----: 1.06e-16 0.151678 1.85e-19 0.164938 0.973404 ( 0.003596) 0.808467 ( 0.145979) 0.973814 0.847180 --->plink-------germline1: 3.96e-18 0.661963 1.41e-242 0.661929 0.981943 ( 0.000893) 0.320015 ( 0.002446) 0.981871 0.320128 --->plink-------germline2: 3.96e-18 0.484390 5.72e-222 0.484279 0.981943 ( 0.000893) 0.497664 ( 0.002992) 0.981871 0.497567 --->plink-------dash-----: 2.11e-17 0.160220 8.87e-21 0.173476 0.981943 ( 0.000893) 0.808467 ( 0.145979) 0.981871 0.847180 --->germline1---germline2: 3.96e-18 -0.177682 1.06e-201 -0.177650 0.320015 ( 0.002446) 0.497664 ( 0.002992) 0.320128 0.497567 --->germline1---dash-----: 3.96e-18 -0.501811 8.88e-56 -0.488452 0.320015 ( 0.002446) 0.808467 ( 0.145979) 0.320128 0.847180 --->germline2---dash-----: 1.13e-17 -0.324258 8.19e-39 -0.310803 0.497664 ( 0.002992) 0.808467 ( 0.145979) 0.497567 0.847180 ######sensitivity###### --->fabia-------beagle1--: 5.34e-18 -0.517952 9.98e-27 -0.513907 0.459909 ( 0.361805) 0.973815 ( 0.078890) 0.498296 1.000000 --->fabia-------beagle2--: 3.37e-13 -0.360212 3.15e-16 -0.357070 0.459909 ( 0.361805) 0.816978 ( 0.276983) 0.498296 0.998276 --->fabia-------plink----: 4.46e-18 -0.527779 1.14e-26 -0.529370 0.459909 ( 0.361805) 0.989279 ( 0.012147) 0.498296 0.992652 --->fabia-------germline1: 5.38e-13 -0.382837 3.28e-17 -0.380985 0.459909 ( 0.361805) 0.840894 ( 0.119684) 0.498296 0.872470 --->fabia-------germline2: 2.3e-03 -0.141920 1.08e-03 -0.141358 0.459909 ( 0.361805) 0.601266 ( 0.182372) 0.498296 0.621997 --->fabia-------dash-----: 3.96e-18 -3226666 2.09e-203 -3226790 0.46 ( 0.362) 3226791 ( 29838) 0.498 3225724 --->beagle1-----beagle2--: 5.36e-09 0.328650 1.57e-09 0.156837 0.973815 ( 0.078890) 0.816978 ( 0.276983) 1.000000 0.998276 --->beagle1-----plink----: 6.8e-03 0.005777 4.22e-02 -0.015463 0.973815 ( 0.078890) 0.989279 ( 0.012147) 1.000000 0.992652 --->beagle1-----germline1: 7.62e-14 0.124842 1.18e-15 0.132921 0.973815 ( 0.078890) 0.840894 ( 0.119684) 1.000000 0.872470 --->beagle1-----germline2: 5.68e-18 0.369676 4.8e-34 0.372549 0.973815 ( 0.078890) 0.601266 ( 0.182372) 1.000000 0.621997 --->beagle1-----dash-----: 3.96e-18 -3226666 2.09e-203 -3226790 0.974 ( 0.0789) 3226791 ( 29838) 1 3225724 --->beagle2-----plink----: 1.3e-05 -0.143828 8.63e-09 -0.172300 0.816978 ( 0.276983) 0.989279 ( 0.012147) 0.998276 0.992652 --->beagle2-----germline1: 4.1e-01 0.020039 3.96e-01 -0.023915 0.816978 ( 0.276983) 0.840894 ( 0.119684) 0.998276 0.872470 --->beagle2-----germline2: 1.2e-08 0.256292 3.78e-10 0.215712 0.816978 ( 0.276983) 0.601266 ( 0.182372) 0.998276 0.621997 --->beagle2-----dash-----: 3.96e-18 -3226661 2.09e-203 -3226790 0.817 ( 0.277) 3226791 ( 29838) 0.998 3225724 --->plink-------germline1: 9.46e-18 0.139246 3.92e-22 0.148385 0.989279 ( 0.012147) 0.840894 ( 0.119684) 0.992652 0.872470 --->plink-------germline2: 3.96e-18 0.379197 1.12e-38 0.388012 0.989279 ( 0.012147) 0.601266 ( 0.182372) 0.992652 0.621997 --->plink-------dash-----: 3.96e-18 -3226662 2.09e-203 -3226790 0.989 ( 0.0121) 3226791 ( 29838) 0.993 3225724 --->germline1---germline2: 1.81e-17 0.242564 3.89e-30 0.239628 0.840894 ( 0.119684) 0.601266 ( 0.182372) 0.872470 0.621997 --->germline1---dash-----: 3.96e-18 -3226667 2.09e-203 -3226790 0.841 ( 0.12) 3226791 ( 29838) 0.872 3225724 --->germline2---dash-----: 3.96e-18 -3226663 2.09e-203 -3226790 0.601 ( 0.182) 3226791 ( 29838) 0.622 3225724 ######trueN###### --->fabia-------beagle1--: 3.96e-18 13185739 1.26e-217 13186559 2e+07 ( 821) 6811508 ( 87686) 2e+07 6814022 --->fabia-------beagle2--: 3.96e-18 10263949 4.66e-245 10265466 2e+07 ( 821) 9732601 ( 35957) 2e+07 9736678 --->fabia-------plink----: 3.96e-18 10180174 1.44e-304 10180091 2e+07 ( 821) 9817976 ( 8934) 2e+07 9817280 --->fabia-------germline1: 3.96e-18 16798524 6.64e-283 16798395 2e+07 ( 821) 3199672 ( 24450) 2e+07 3200797 --->fabia-------germline2: 3.96e-18 1.5e+07 2.37e-269 1.5e+07 2e+07 ( 821) 4975904 ( 29916) 2e+07 4974942 --->fabia-------dash-----: 3.96e-18 13226184 6.88e-264 13226341 2e+07 ( 821) 6771726 ( 29845) 2e+07 6772814 --->beagle1-----beagle2--: 3.96e-18 -2920210 3.58e-157 -2921093 6811508 ( 87686) 9732601 ( 35957) 6814022 9736678 --->beagle1-----plink----: 3.96e-18 -3e+06 1.67e-155 -3006468 6811508 ( 87686) 9817976 ( 8934) 6814022 9817280 --->beagle1-----germline1: 3.96e-18 3614252 1.26e-159 3611836 6811508 ( 87686) 3199672 ( 24450) 6814022 3200797 --->beagle1-----germline2: 3.96e-18 1838819 1.07e-130 1835604 6811508 ( 87686) 4975904 ( 29916) 6814022 4974942 --->beagle1-----dash-----: 8.56e-05 40200 4.08e-05 39781 6811508 ( 87686) 6771726 ( 29845) 6814022 6772814 --->beagle2-----plink----: 3.96e-18 -84349 2.74e-42 -85376 9732601 ( 35957) 9817976 ( 8934) 9736678 9817280 --->beagle2-----germline1: 3.96e-18 6534119 4.93e-217 6532929 9732601 ( 35957) 3199672 ( 24450) 9736678 3200797 --->beagle2-----germline2: 3.96e-18 4757963 4.17e-200 4756697 9732601 ( 35957) 4975904 ( 29916) 9736678 4974942 --->beagle2-----dash-----: 3.96e-18 2963210 1.63e-179 2960874 9732601 ( 35957) 6771726 ( 29845) 9736678 6772814 --->plink-------germline1: 3.96e-18 6618626 1.43e-242 6618304 9817976 ( 8934) 3199672 ( 24450) 9817280 3200797 --->plink-------germline2: 3.96e-18 4843191 5.76e-222 4842072 9817976 ( 8934) 4975904 ( 29916) 9817280 4974942 --->plink-------dash-----: 3.96e-18 3045699 1.98e-197 3046250 9817976 ( 8934) 6771726 ( 29845) 9817280 6772814 --->germline1---germline2: 3.96e-18 -1776625 1.06e-201 -1776232 3199672 ( 24450) 4975904 ( 29916) 3200797 4974942 --->germline1---dash-----: 3.96e-18 -3572634 2.91e-184 -3572055 3199672 ( 24450) 6771726 ( 29845) 3200797 6772814 --->germline2---dash-----: 3.96e-18 -1797178 1.14e-152 -1795822 4975904 ( 29916) 6771726 ( 29845) 4974942 6772814 ######falseP###### --->fabia-------beagle1--: 3.96e-18 -3185741 1.41e-156 -3186559 450 ( 820) 3187009 ( 87683) 4 3184502 --->fabia-------beagle2--: 3.96e-18 -263941 2.72e-88 -265466 450 ( 820) 265916 ( 35951) 4 261822 --->fabia-------plink----: 3.96e-18 -180173 3.81e-131 -180091 450 ( 820) 180541 ( 8932) 4 181262 --->fabia-------germline1: 3.96e-18 -6798524 5.19e-244 -6798395 450 ( 820) 6798845 ( 24455) 4 6797699 --->fabia-------germline2: 3.96e-18 -5023058 3.04e-222 -5022163 450 ( 820) 5022613 ( 29919) 4 5023586 --->fabia-------dash-----: 3.55e-01 -72.5 5.1e-02 168 450 ( 820) 282 ( 211) 4 222 --->beagle1-----beagle2--: 3.96e-18 2920209 3.58e-157 2921093 3187009 ( 87683) 265916 ( 35951) 3184502 261822 --->beagle1-----plink----: 3.96e-18 3e+06 1.67e-155 3006468 3187009 ( 87683) 180541 ( 8932) 3184502 181262 --->beagle1-----germline1: 3.96e-18 -3614251 1.26e-159 -3611836 3187009 ( 87683) 6798845 ( 24455) 3184502 6797699 --->beagle1-----germline2: 3.96e-18 -1838830 1.07e-130 -1835604 3187009 ( 87683) 5022613 ( 29919) 3184502 5023586 --->beagle1-----dash-----: 3.96e-18 3186016 1.53e-156 3186728 3187009 ( 87683) 282 ( 211) 3184502 222 --->beagle2-----plink----: 3.96e-18 84350 2.74e-42 85376 265916 ( 35951) 180541 ( 8932) 261822 181262 --->beagle2-----germline1: 3.96e-18 -6534117 4.93e-217 -6532929 265916 ( 35951) 6798845 ( 24455) 261822 6797699 --->beagle2-----germline2: 3.96e-18 -4757962 4.17e-200 -4756697 265916 ( 35951) 5022613 ( 29919) 261822 5023586 --->beagle2-----dash-----: 3.96e-18 264078 2.15e-88 265635 265916 ( 35951) 282 ( 211) 261822 222 --->plink-------germline1: 3.96e-18 -6618624 1.43e-242 -6618304 180541 ( 8932) 6798845 ( 24455) 181262 6797699 --->plink-------germline2: 3.96e-18 -4843197 5.76e-222 -4842072 180541 ( 8932) 5022613 ( 29919) 181262 5023586 --->plink-------dash-----: 3.96e-18 180317 2.4e-131 180259 180541 ( 8932) 282 ( 211) 181262 222 --->germline1---germline2: 3.96e-18 1776624 1.06e-201 1776232 6798845 ( 24455) 5022613 ( 29919) 6797699 5023586 --->germline1---dash-----: 3.96e-18 6798704 5.29e-244 6798564 6798845 ( 24455) 282 ( 211) 6797699 222 --->germline2---dash-----: 3.96e-18 5023215 2.41e-222 5022332 5022613 ( 29919) 282 ( 211) 5023586 222 ######falseN###### --->fabia-------beagle1--: 5.51e-18 765 8.83e-27 761 799 ( 533) 38.3 ( 115) 740 0 --->fabia-------beagle2--: 3.29e-13 533 3.11e-16 531 799 ( 533) 268 ( 406) 740 2.5 --->fabia-------plink----: 4.46e-18 785 8.79e-27 783 799 ( 533) 15.7 ( 17.5) 740 11 --->fabia-------germline1: 5.52e-13 566 2.39e-17 565 799 ( 533) 234 ( 173) 740 187 --->fabia-------germline2: 2.13e-03 209 9.95e-04 210 799 ( 533) 589 ( 266) 740 580 --->fabia-------dash-----: 5.72e-08 -401 7.45e-10 -403 799 ( 533) 1202 ( 234) 740 1233 --->beagle1-----beagle2--: 5.36e-09 -476 1.73e-09 -229 38.3 ( 115) 268 ( 406) 0 2.5 --->beagle1-----plink----: 7.01e-03 -8.5 4.21e-02 22.5 38.3 ( 115) 15.7 ( 17.5) 0 11 --->beagle1-----germline1: 6.6e-14 -185 5.03e-16 -196 38.3 ( 115) 234 ( 173) 0 187 --->beagle1-----germline2: 5.51e-18 -548 1.51e-34 -551 38.3 ( 115) 589 ( 266) 0 580 --->beagle1-----dash-----: 3.96e-18 -1187 1.47e-66 -1163 38.3 ( 115) 1202 ( 234) 0 1233 --->beagle2-----plink----: 1.3e-05 209 9.29e-09 252 268 ( 406) 15.7 ( 17.5) 2.5 11 --->beagle2-----germline1: 4.08e-01 -30 4.14e-01 33.6 268 ( 406) 234 ( 173) 2.5 187 --->beagle2-----germline2: 9.65e-09 -380 2.34e-10 -321 268 ( 406) 589 ( 266) 2.5 580 --->beagle2-----dash-----: 2.96e-17 -994 7.24e-34 -934 268 ( 406) 1202 ( 234) 2.5 1233 --->plink-------germline1: 9.45e-18 -205 1.59e-22 -218 15.7 ( 17.5) 234 ( 173) 11 187 --->plink-------germline2: 3.96e-18 -562 3.94e-39 -573 15.7 ( 17.5) 589 ( 266) 11 580 --->plink-------dash-----: 3.95e-18 -1201 2.33e-72 -1186 15.7 ( 17.5) 1202 ( 234) 11 1233 --->germline1---germline2: 1.81e-17 -360 2.6e-30 -355 234 ( 173) 589 ( 266) 187 580 --->germline1---dash-----: 5.19e-18 -997 5.6e-44 -968 234 ( 173) 1202 ( 234) 187 1233 --->germline2---dash-----: 8.7e-16 -636 1.35e-24 -613 589 ( 266) 1202 ( 234) 580 1233 ######trueP###### --->fabia-------beagle1--: 5.51e-18 -766 8.83e-27 -761 684 ( 539) 1445 ( 136) 740 1465 --->fabia-------beagle2--: 3.29e-13 -533 3.11e-16 -531 684 ( 539) 1216 ( 423) 740 1414 --->fabia-------plink----: 4.46e-18 -785 8.79e-27 -783 684 ( 539) 1467 ( 68.6) 740 1462 --->fabia-------germline1: 5.52e-13 -566 2.39e-17 -565 684 ( 539) 1249 ( 197) 740 1260 --->fabia-------germline2: 2.13e-03 -209 9.95e-04 -210 684 ( 539) 894 ( 280) 740 906 --->fabia-------dash-----: 1e+00 0 1e+00 0 684 ( 539) 0 ( 0) 740 0 --->beagle1-----beagle2--: 5.36e-09 476 1.73e-09 229 1445 ( 136) 1216 ( 423) 1465 1414 --->beagle1-----plink----: 7.01e-03 8.5 4.21e-02 -22.5 1445 ( 136) 1467 ( 68.6) 1465 1462 --->beagle1-----germline1: 6.6e-14 185 5.03e-16 196 1445 ( 136) 1249 ( 197) 1465 1260 --->beagle1-----germline2: 5.51e-18 548 1.51e-34 551 1445 ( 136) 894 ( 280) 1465 906 --->beagle1-----dash-----: 1e+00 0 1e+00 0 1445 ( 136) 0 ( 0) 1465 0 --->beagle2-----plink----: 1.3e-05 -209 9.29e-09 -252 1216 ( 423) 1467 ( 68.6) 1414 1462 --->beagle2-----germline1: 4.08e-01 30 4.14e-01 -33.6 1216 ( 423) 1249 ( 197) 1414 1260 --->beagle2-----germline2: 9.65e-09 380 2.34e-10 321 1216 ( 423) 894 ( 280) 1414 906 --->beagle2-----dash-----: 1e+00 0 1e+00 0 1216 ( 423) 0 ( 0) 1414 0 --->plink-------germline1: 9.45e-18 205 1.59e-22 218 1467 ( 68.6) 1249 ( 197) 1462 1260 --->plink-------germline2: 3.96e-18 562 3.94e-39 573 1467 ( 68.6) 894 ( 280) 1462 906 --->plink-------dash-----: 1e+00 0 1e+00 0 1467 ( 68.6) 0 ( 0) 1462 0 --->germline1---germline2: 1.81e-17 360 2.6e-30 355 1249 ( 197) 894 ( 280) 1260 906 --->germline1---dash-----: 1e+00 0 1e+00 0 1249 ( 197) 0 ( 0) 1260 0 --->germline2---dash-----: 1e+00 0 1e+00 0 894 ( 280) 0 ( 0) 906 0 ######MatthewsSnps###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.526849 ( 0.337451) 0.000000 ( 0.000000) 0.662397 0.000000 --->fabia-------beagle2--: 1.92e-14 0.693130 3.02e-28 0.524117 0.526849 ( 0.337451) 0.002732 ( 0.006707) 0.662397 0.000000 --->fabia-------plink----: 5.39e-14 0.628593 5.12e-28 0.520793 0.526849 ( 0.337451) 0.006056 ( 0.005198) 0.662397 0.005895 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.526849 ( 0.337451) 0.000000 ( 0.000000) 0.662397 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.526849 ( 0.337451) 0.000000 ( 0.000000) 0.662397 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.526849 ( 0.337451) 0.039216 ( 0.000000) 0.662397 0.039216 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.002732 ( 0.006707) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.006056 ( 0.005198) 0.000000 0.005895 --->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----: 6.04e-05 -0.006184 1.93e-04 -0.003324 0.002732 ( 0.006707) 0.006056 ( 0.005198) 0.000000 0.005895 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.002732 ( 0.006707) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.002732 ( 0.006707) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.002732 ( 0.006707) 0.039216 ( 0.000000) 0.000000 0.039216 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.006056 ( 0.005198) 0.000000 ( 0.000000) 0.005895 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.006056 ( 0.005198) 0.000000 ( 0.000000) 0.005895 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.006056 ( 0.005198) 0.039216 ( 0.000000) 0.005895 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 0.507985 ( 0.331308) 0.039212 ( 0.000000) 0.628058 0.039212 --->fabia-------beagle2--: 1.53e-13 0.506062 1.65e-25 0.468674 0.507985 ( 0.331308) 0.039311 ( 0.000318) 0.628058 0.039212 --->fabia-------plink----: 1.58e-13 0.505857 1.67e-25 0.468649 0.507985 ( 0.331308) 0.039335 ( 0.000147) 0.628058 0.039281 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.507985 ( 0.331308) 0.039216 ( 0.000000) 0.628058 0.039216 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.507985 ( 0.331308) 0.039216 ( 0.000000) 0.628058 0.039216 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.507985 ( 0.331308) 0.020000 ( 0.000000) 0.628058 0.020000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.039212 ( 0.000000) 0.039311 ( 0.000318) 0.039212 0.039212 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.039212 ( 0.000000) 0.039335 ( 0.000147) 0.039212 0.039281 --->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 0.039311 ( 0.000318) 0.039335 ( 0.000147) 0.039212 0.039281 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.039311 ( 0.000318) 0.039216 ( 0.000000) 0.039212 0.039216 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.039311 ( 0.000318) 0.039216 ( 0.000000) 0.039212 0.039216 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.039311 ( 0.000318) 0.020000 ( 0.000000) 0.039212 0.020000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.039335 ( 0.000147) 0.039216 ( 0.000000) 0.039281 0.039216 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.039335 ( 0.000147) 0.039216 ( 0.000000) 0.039281 0.039216 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.039335 ( 0.000147) 0.020000 ( 0.000000) 0.039281 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 0.983360 ( 0.010242) 0.019900 ( 0.000000) 0.981800 0.019900 --->fabia-------beagle2--: 3.78e-18 0.962717 2.4e-186 0.960959 0.983360 ( 0.010242) 0.022401 ( 0.007956) 0.981800 0.019900 --->fabia-------plink----: 3.95e-18 0.961193 1.68e-193 0.960276 0.983360 ( 0.010242) 0.023084 ( 0.003772) 0.981800 0.021700 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.983360 ( 0.010242) 0.020000 ( 0.000000) 0.981800 0.020000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.983360 ( 0.010242) 0.020000 ( 0.000000) 0.981800 0.020000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.983360 ( 0.010242) 1.000000 ( 0.000000) 0.981800 1.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.019900 ( 0.000000) 0.022401 ( 0.007956) 0.019900 0.019900 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.019900 ( 0.000000) 0.023084 ( 0.003772) 0.019900 0.021700 --->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----: 2.91e-06 -0.001770 4.43e-01 -0.000683 0.022401 ( 0.007956) 0.023084 ( 0.003772) 0.019900 0.021700 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.022401 ( 0.007956) 0.020000 ( 0.000000) 0.019900 0.020000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.022401 ( 0.007956) 0.020000 ( 0.000000) 0.019900 0.020000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.022401 ( 0.007956) 1.000000 ( 0.000000) 0.019900 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.023084 ( 0.003772) 0.020000 ( 0.000000) 0.021700 0.020000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.023084 ( 0.003772) 0.020000 ( 0.000000) 0.021700 0.020000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.023084 ( 0.003772) 1.000000 ( 0.000000) 0.021700 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 0.00806 ( 0.0132) 1 ( 0) 0 1 --->fabia-------beagle2--: 1.95e-18 -0.992 1.67e-180 -0.989 0.00806 ( 0.0132) 0.998 ( 0.00812) 0 1 --->fabia-------plink----: 3.83e-18 -0.990926 3.96e-186 -0.988795 0.008058 ( 0.013188) 0.996853 ( 0.003849) 0.000000 0.998265 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.008058 ( 0.013188) 1.000000 ( 0.000000) 0.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.008058 ( 0.013188) 1.000000 ( 0.000000) 0.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.008058 ( 0.013188) 0.980000 ( 0.000000) 0.000000 0.980000 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 1 ( 0) 0.998 ( 0.00812) 1 1 --->beagle1-----plink----: 1e+00 0 1e+00 0 1 ( 0) 0.997 ( 0.00385) 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----: 2.86e-06 0.00184 4.43e-01 0.000697 0.998 ( 0.00812) 0.997 ( 0.00385) 1 0.998 --->beagle2-----germline1: 1e+00 0 1e+00 0 0.998 ( 0.00812) 1 ( 0) 1 1 --->beagle2-----germline2: 1e+00 0 1e+00 0 0.998 ( 0.00812) 1 ( 0) 1 1 --->beagle2-----dash-----: 1e+00 0 1e+00 0 0.998 ( 0.00812) 0.98 ( 0) 1 0.98 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.996853 ( 0.003849) 1.000000 ( 0.000000) 0.998265 1.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.996853 ( 0.003849) 1.000000 ( 0.000000) 0.998265 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.996853 ( 0.003849) 0.980000 ( 0.000000) 0.998265 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 0.180605 ( 0.255729) 0.980002 ( 0.000000) 0.000000 0.980002 --->fabia-------beagle2--: 1.95e-18 -0.810471 4.29e-53 -0.799346 0.180605 ( 0.255729) 0.979951 ( 0.000165) 0.000000 0.980002 --->fabia-------plink----: 3.83e-18 -0.810476 4.29e-53 -0.799333 0.180605 ( 0.255729) 0.979938 ( 7.63e-05) 0.000000 0.979966 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.180605 ( 0.255729) 0.980000 ( 0.000000) 0.000000 0.980000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.180605 ( 0.255729) 0.980000 ( 0.000000) 0.000000 0.980000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.180605 ( 0.255729) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.980002 ( 0.000000) 0.979951 ( 0.000165) 0.980002 0.980002 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.980002 ( 0.000000) 0.979938 ( 7.63e-05) 0.980002 0.979966 --->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 0.979951 ( 0.000165) 0.979938 ( 7.63e-05) 0.980002 0.979966 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.979951 ( 0.000165) 0.980000 ( 0.000000) 0.980002 0.980000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.979951 ( 0.000165) 0.980000 ( 0.000000) 0.980002 0.980000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.979951 ( 0.000165) 0.000000 ( 0.000000) 0.980002 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.979938 ( 7.63e-05) 0.980000 ( 0.000000) 0.979966 0.980000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.979938 ( 7.63e-05) 0.980000 ( 0.000000) 0.979966 0.980000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.979938 ( 7.63e-05) 0.000000 ( 0.000000) 0.979966 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 0.991942 ( 0.013188) -0.000102 ( 0.000000) 1.000000 -0.000102 --->fabia-------beagle2--: 1.95e-18 0.992454 1.67e-180 0.989492 0.991942 ( 0.013188) 0.002450 ( 0.008119) 1.000000 -0.000102 --->fabia-------plink----: 3.83e-18 0.990926 3.96e-186 0.988795 0.991942 ( 0.013188) 0.003147 ( 0.003849) 1.000000 0.001735 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.991942 ( 0.013188) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.991942 ( 0.013188) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.991942 ( 0.013188) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 -0.000102 ( 0.000000) 0.002450 ( 0.008119) -0.000102 -0.000102 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 -0.000102 ( 0.000000) 0.003147 ( 0.003849) -0.000102 0.001735 --->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----: 2.89e-06 -0.001831 4.43e-01 -0.000697 0.002450 ( 0.008119) 0.003147 ( 0.003849) -0.000102 0.001735 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.002450 ( 0.008119) 0.000000 ( 0.000000) -0.000102 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.002450 ( 0.008119) 0.000000 ( 0.000000) -0.000102 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.002450 ( 0.008119) 1.000000 ( 0.000000) -0.000102 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.003147 ( 0.003849) 0.000000 ( 0.000000) 0.001735 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.003147 ( 0.003849) 0.000000 ( 0.000000) 0.001735 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.003147 ( 0.003849) 1.000000 ( 0.000000) 0.001735 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 0.562850 ( 0.383763) 1.000000 ( 0.000000) 0.660000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.562850 ( 0.383763) 1.000000 ( 0.000000) 0.660000 1.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.562850 ( 0.383763) 1.000000 ( 0.000000) 0.660000 1.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.562850 ( 0.383763) 1.000000 ( 0.000000) 0.660000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.562850 ( 0.383763) 1.000000 ( 0.000000) 0.660000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.562850 ( 0.383763) 0.000000 ( 0.000000) 0.660000 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 9721 ( 129) -1 ( 0) 9800 -1 --->fabia-------beagle2--: 1.95e-18 9726 1.67e-180 9697 9721 ( 129) 24 ( 79.6) 9800 -1 --->fabia-------plink----: 3.83e-18 9711 3.96e-186 9690 9721 ( 129) 30.8 ( 37.7) 9800 17 --->fabia-------germline1: 1e+00 0 1e+00 0 9721 ( 129) 0 ( 0) 9800 0 --->fabia-------germline2: 1e+00 0 1e+00 0 9721 ( 129) 0 ( 0) 9800 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 9721 ( 129) 9800 ( 0) 9800 9800 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 -1.000000 ( 0.000000) 24.010000 (79.561487) -1.000000 -1.000000 --->beagle1-----plink----: 1e+00 0 1e+00 0 -1 ( 0) 30.8 ( 37.7) -1 17 --->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----: 2.84e-06 -18 4.43e-01 -6.83 24 ( 79.6) 30.8 ( 37.7) -1 17 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 24.010000 (79.561487) 0.000000 ( 0.000000) -1.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 24.010000 (79.561487) 0.000000 ( 0.000000) -1.000000 0.000000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 24 ( 79.6) 9800 ( 0) -1 9800 --->plink-------germline1: 1e+00 0 1e+00 0 30.8 ( 37.7) 0 ( 0) 17 0 --->plink-------germline2: 1e+00 0 1e+00 0 30.8 ( 37.7) 0 ( 0) 17 0 --->plink-------dash-----: 1e+00 0 1e+00 0 30.8 ( 37.7) 9800 ( 0) 17 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 79 ( 129) 9801 ( 0) 0 9801 --->fabia-------beagle2--: 1.95e-18 -9726 1.67e-180 -9697 79 ( 129) 9776 ( 79.6) 0 9801 --->fabia-------plink----: 3.83e-18 -9711 3.96e-186 -9690 79 ( 129) 9769 ( 37.7) 0 9783 --->fabia-------germline1: 1e+00 0 1e+00 0 79 ( 129) 9800 ( 0) 0 9800 --->fabia-------germline2: 1e+00 0 1e+00 0 79 ( 129) 9800 ( 0) 0 9800 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 78.970000 (129.244694) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 9801 ( 0) 9776 ( 79.6) 9801 9801 --->beagle1-----plink----: 1e+00 0 1e+00 0 9801 ( 0) 9769 ( 37.7) 9801 9783 --->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----: 2.84e-06 18 4.43e-01 6.83 9776 ( 79.6) 9769 ( 37.7) 9801 9783 --->beagle2-----germline1: 1e+00 0 1e+00 0 9776 ( 79.6) 9800 ( 0) 9801 9800 --->beagle2-----germline2: 1e+00 0 1e+00 0 9776 ( 79.6) 9800 ( 0) 9801 9800 --->beagle2-----dash-----: 1e+00 0 1e+00 0 9776 ( 79.6) 0 ( 0) 9801 0 --->plink-------germline1: 1e+00 0 1e+00 0 9769 ( 37.7) 9800 ( 0) 9783 9800 --->plink-------germline2: 1e+00 0 1e+00 0 9769 ( 37.7) 9800 ( 0) 9783 9800 --->plink-------dash-----: 1e+00 0 1e+00 0 9769 ( 37.7) 0 ( 0) 9783 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 87.4 ( 76.8) 0 ( 0) 68 0 --->fabia-------beagle2--: 1e+00 0 1e+00 0 87.4 ( 76.8) 0 ( 0) 68 0 --->fabia-------plink----: 1e+00 0 1e+00 0 87.4 ( 76.8) 0 ( 0) 68 0 --->fabia-------germline1: 1e+00 0 1e+00 0 87.4 ( 76.8) 0 ( 0) 68 0 --->fabia-------germline2: 1e+00 0 1e+00 0 87.4 ( 76.8) 0 ( 0) 68 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 87.4 ( 76.8) 200 ( 0) 68 200 --->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 0 113 ( 76.8) 200 ( 0) 132 200 --->fabia-------beagle2--: 1e+00 0 1e+00 0 113 ( 76.8) 200 ( 0) 132 200 --->fabia-------plink----: 1e+00 0 1e+00 0 113 ( 76.8) 200 ( 0) 132 200 --->fabia-------germline1: 1e+00 0 1e+00 0 113 ( 76.8) 200 ( 0) 132 200 --->fabia-------germline2: 1e+00 0 1e+00 0 113 ( 76.8) 200 ( 0) 132 200 --->fabia-------dash-----: 1e+00 0 1e+00 0 113 ( 76.8) 0 ( 0) 132 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--: 1.42e-13 0.595285 4.31e-26 0.582627 0.615124 ( 0.404747) 0.032497 ( 0.009271) 0.773819 0.034424 --->fabia-------beagle2--: 5.95e-13 0.404052 4.69e-17 0.385438 0.615124 ( 0.404747) 0.229686 ( 0.088615) 0.773819 0.266813 --->fabia-------plink----: 1.58e-13 0.565430 2.6e-24 0.549264 0.615124 ( 0.404747) 0.065860 ( 0.002995) 0.773819 0.065952 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.615124 ( 0.404747) 0.000000 ( 0.000000) 0.773819 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.615124 ( 0.404747) 0.000000 ( 0.000000) 0.773819 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.615124 ( 0.404747) 0.019802 ( 0.000000) 0.773819 0.019802 --->beagle1-----beagle2--: 1.17e-17 -0.214482 1.21e-41 -0.197189 0.032497 ( 0.009271) 0.229686 ( 0.088615) 0.034424 0.266813 --->beagle1-----plink----: 3.96e-18 -0.031674 7.46e-55 -0.033363 0.032497 ( 0.009271) 0.065860 ( 0.002995) 0.034424 0.065952 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.032497 ( 0.009271) 0.000000 ( 0.000000) 0.034424 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.032497 ( 0.009271) 0.000000 ( 0.000000) 0.034424 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.032497 ( 0.009271) 0.019802 ( 0.000000) 0.034424 0.019802 --->beagle2-----plink----: 5.9e-17 0.181915 1.02e-33 0.163826 0.229686 ( 0.088615) 0.065860 ( 0.002995) 0.266813 0.065952 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.229686 ( 0.088615) 0.000000 ( 0.000000) 0.266813 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.229686 ( 0.088615) 0.000000 ( 0.000000) 0.266813 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.229686 ( 0.088615) 0.019802 ( 0.000000) 0.266813 0.019802 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.065860 ( 0.002995) 0.000000 ( 0.000000) 0.065952 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.065860 ( 0.002995) 0.000000 ( 0.000000) 0.065952 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.065860 ( 0.002995) 0.019802 ( 0.000000) 0.065952 0.019802 --->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) 0.019802 ( 0.000000) 0.000000 0.019802 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.019802 ( 0.000000) 0.000000 0.019802 ######F1Sample###### --->fabia-------beagle1--: 1.58e-13 0.547373 1.47e-25 0.576464 0.598441 ( 0.406839) 0.021977 ( 0.000652) 0.750000 0.022099 --->fabia-------beagle2--: 1.41e-13 0.480233 1.79e-20 0.459830 0.598441 ( 0.406839) 0.138611 ( 0.047915) 0.750000 0.152526 --->fabia-------plink----: 1.58e-13 0.537388 3.07e-25 0.570239 0.598441 ( 0.406839) 0.028202 ( 0.000761) 0.750000 0.028209 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.598441 ( 0.406839) 0.019802 ( 0.000000) 0.750000 0.019802 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.598441 ( 0.406839) 0.019802 ( 0.000000) 0.750000 0.019802 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.598441 ( 0.406839) 0.010000 ( 0.000000) 0.750000 0.010000 --->beagle1-----beagle2--: 7.9e-18 -0.124478 9.31e-44 -0.116634 0.021977 ( 0.000652) 0.138611 ( 0.047915) 0.022099 0.152526 --->beagle1-----plink----: 3.96e-18 -0.006142 4.19e-78 -0.006225 0.021977 ( 0.000652) 0.028202 ( 0.000761) 0.022099 0.028209 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.021977 ( 0.000652) 0.019802 ( 0.000000) 0.022099 0.019802 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.021977 ( 0.000652) 0.019802 ( 0.000000) 0.022099 0.019802 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.021977 ( 0.000652) 0.010000 ( 0.000000) 0.022099 0.010000 --->beagle2-----plink----: 8.14e-18 0.118351 1.66e-41 0.110409 0.138611 ( 0.047915) 0.028202 ( 0.000761) 0.152526 0.028209 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.138611 ( 0.047915) 0.019802 ( 0.000000) 0.152526 0.019802 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.138611 ( 0.047915) 0.019802 ( 0.000000) 0.152526 0.019802 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.138611 ( 0.047915) 0.010000 ( 0.000000) 0.152526 0.010000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.028202 ( 0.000761) 0.019802 ( 0.000000) 0.028209 0.019802 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.028202 ( 0.000761) 0.019802 ( 0.000000) 0.028209 0.019802 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.028202 ( 0.000761) 0.010000 ( 0.000000) 0.028209 0.010000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.019802 ( 0.000000) 0.019802 ( 0.000000) 0.019802 0.019802 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.019802 ( 0.000000) 0.010000 ( 0.000000) 0.019802 0.010000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.019802 ( 0.000000) 0.010000 ( 0.000000) 0.019802 0.010000 ######accuracySample###### --->fabia-------beagle1--: 3.92e-18 0.882484 4.04e-197 0.882485 0.997705 ( 0.002013) 0.115220 ( 0.008910) 0.998000 0.115500 --->fabia-------beagle2--: 3.94e-18 0.100261 1.66e-89 0.100495 0.997705 ( 0.002013) 0.897210 ( 0.013223) 0.998000 0.898000 --->fabia-------plink----: 3.94e-18 0.687270 1.27e-155 0.687375 0.997705 ( 0.002013) 0.310330 ( 0.019087) 0.998000 0.311000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.997705 ( 0.002013) 0.010000 ( 0.000000) 0.998000 0.010000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.997705 ( 0.002013) 0.010000 ( 0.000000) 0.998000 0.010000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.997705 ( 0.002013) 1.000000 ( 0.000000) 0.998000 1.000000 --->beagle1-----beagle2--: 3.93e-18 -0.781540 2.05e-170 -0.781990 0.115220 ( 0.008910) 0.897210 ( 0.013223) 0.115500 0.898000 --->beagle1-----plink----: 3.94e-18 -0.195453 3.44e-98 -0.195110 0.115220 ( 0.008910) 0.310330 ( 0.019087) 0.115500 0.311000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.115220 ( 0.008910) 0.010000 ( 0.000000) 0.115500 0.010000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.115220 ( 0.008910) 0.010000 ( 0.000000) 0.115500 0.010000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.115220 ( 0.008910) 1.000000 ( 0.000000) 0.115500 1.000000 --->beagle2-----plink----: 3.94e-18 0.586506 4.01e-143 0.586880 0.897210 ( 0.013223) 0.310330 ( 0.019087) 0.898000 0.311000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.897210 ( 0.013223) 0.010000 ( 0.000000) 0.898000 0.010000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.897210 ( 0.013223) 0.010000 ( 0.000000) 0.898000 0.010000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.897210 ( 0.013223) 1.000000 ( 0.000000) 0.898000 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.310330 ( 0.019087) 0.010000 ( 0.000000) 0.311000 0.010000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.310330 ( 0.019087) 0.010000 ( 0.000000) 0.311000 0.010000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.310330 ( 0.019087) 1.000000 ( 0.000000) 0.311000 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.010000 ( 0.000000) 0.010000 ( 0.000000) 0.010000 0.010000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.010000 ( 0.000000) 1.000000 ( 0.000000) 0.010000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.010000 ( 0.000000) 1.000000 ( 0.000000) 0.010000 1.000000 ######FPRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.893657 ( 0.008986) 0.000000 0.893434 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.102000 ( 0.012698) 0.000000 0.102020 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.696636 ( 0.019280) 0.000000 0.695960 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 1.000000 ( 0.000000) 0.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 1.000000 ( 0.000000) 0.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.990000 ( 0.000000) 0.000000 0.990000 --->beagle1-----beagle2--: 3.94e-18 0.791391 4.62e-172 0.791657 0.893657 ( 0.008986) 0.102000 ( 0.012698) 0.893434 0.102020 --->beagle1-----plink----: 3.94e-18 0.197441 2.81e-98 0.197020 0.893657 ( 0.008986) 0.696636 ( 0.019280) 0.893434 0.695960 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.893657 ( 0.008986) 1.000000 ( 0.000000) 0.893434 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.893657 ( 0.008986) 1.000000 ( 0.000000) 0.893434 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.893657 ( 0.008986) 0.990000 ( 0.000000) 0.893434 0.990000 --->beagle2-----plink----: 3.95e-18 -0.594472 9.93e-145 -0.594636 0.102000 ( 0.012698) 0.696636 ( 0.019280) 0.102020 0.695960 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.102000 ( 0.012698) 1.000000 ( 0.000000) 0.102020 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.102000 ( 0.012698) 1.000000 ( 0.000000) 0.102020 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.102000 ( 0.012698) 0.990000 ( 0.000000) 0.102020 0.990000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.696636 ( 0.019280) 1.000000 ( 0.000000) 0.695960 1.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.696636 ( 0.019280) 1.000000 ( 0.000000) 0.695960 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.696636 ( 0.019280) 0.990000 ( 0.000000) 0.695960 0.990000 --->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) 0.990000 ( 0.000000) 1.000000 0.990000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.990000 ( 0.000000) 1.000000 0.990000 ######FDRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.988889 ( 0.000330) 0.000000 0.988827 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.924198 ( 0.026448) 0.000000 0.917011 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.985697 ( 0.000391) 0.000000 0.985694 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.990000 ( 0.000000) 0.000000 0.990000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.990000 ( 0.000000) 0.000000 0.990000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 7.44e-18 0.068805 6.43e-44 0.064690 0.988889 ( 0.000330) 0.924198 ( 0.026448) 0.988827 0.917011 --->beagle1-----plink----: 3.96e-18 0.003148 2.96e-78 0.003192 0.988889 ( 0.000330) 0.985697 ( 0.000391) 0.988827 0.985694 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.988889 ( 0.000330) 0.990000 ( 0.000000) 0.988827 0.990000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.988889 ( 0.000330) 0.990000 ( 0.000000) 0.988827 0.990000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.988889 ( 0.000330) 0.000000 ( 0.000000) 0.988827 0.000000 --->beagle2-----plink----: 8.14e-18 -0.065607 7.64e-42 -0.061499 0.924198 ( 0.026448) 0.985697 ( 0.000391) 0.917011 0.985694 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.924198 ( 0.026448) 0.990000 ( 0.000000) 0.917011 0.990000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.924198 ( 0.026448) 0.990000 ( 0.000000) 0.917011 0.990000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.924198 ( 0.026448) 0.000000 ( 0.000000) 0.917011 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.985697 ( 0.000391) 0.990000 ( 0.000000) 0.985694 0.990000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.985697 ( 0.000391) 0.990000 ( 0.000000) 0.985694 0.990000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.985697 ( 0.000391) 0.000000 ( 0.000000) 0.985694 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.000000) 0.990000 ( 0.000000) 0.990000 0.990000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.000000) 0.000000 ( 0.000000) 0.990000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.000000) 0.000000 ( 0.000000) 0.990000 0.000000 ######specifitySample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.106343 ( 0.008986) 1.000000 0.106566 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.898000 ( 0.012698) 1.000000 0.897980 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.303364 ( 0.019280) 1.000000 0.304040 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.000000 ( 0.000000) 1.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 3.94e-18 -0.791332 4.62e-172 -0.791657 0.106343 ( 0.008986) 0.898000 ( 0.012698) 0.106566 0.897980 --->beagle1-----plink----: 3.95e-18 -0.197467 2.81e-98 -0.197020 0.106343 ( 0.008986) 0.303364 ( 0.019280) 0.106566 0.304040 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.106343 ( 0.008986) 0.000000 ( 0.000000) 0.106566 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.106343 ( 0.008986) 0.000000 ( 0.000000) 0.106566 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.106343 ( 0.008986) 1.000000 ( 0.000000) 0.106566 1.000000 --->beagle2-----plink----: 3.95e-18 0.594477 9.93e-145 0.594636 0.898000 ( 0.012698) 0.303364 ( 0.019280) 0.897980 0.304040 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.898000 ( 0.012698) 0.000000 ( 0.000000) 0.897980 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.898000 ( 0.012698) 0.000000 ( 0.000000) 0.897980 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.898000 ( 0.012698) 1.000000 ( 0.000000) 0.897980 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.303364 ( 0.019280) 0.000000 ( 0.000000) 0.304040 0.000000 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 0.303364 ( 0.019280) 0.000000 ( 0.000000) 0.304040 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.303364 ( 0.019280) 1.000000 ( 0.000000) 0.304040 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--: 5.26e-14 -0.599943 1.42e-19 -0.453000 0.541000 ( 0.402541) 0.994000 ( 0.027780) 0.600000 1.000000 --->fabia-------beagle2--: 2.39e-09 -0.350034 1.1e-10 -0.278000 0.541000 ( 0.402541) 0.819000 ( 0.271805) 0.600000 1.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.541000 ( 0.402541) 1.000000 ( 0.000000) 0.600000 1.000000 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.541000 ( 0.402541) 1.000000 ( 0.000000) 0.600000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.541000 ( 0.402541) 1.000000 ( 0.000000) 0.600000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.541000 ( 0.402541) 0.000000 ( 0.000000) 0.600000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1.32e-09 0.175000 0.994000 ( 0.027780) 0.819000 ( 0.271805) 1.000000 1.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.994000 ( 0.027780) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.994000 ( 0.027780) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.994000 ( 0.027780) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.994000 ( 0.027780) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.819000 ( 0.271805) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.819000 ( 0.271805) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.819000 ( 0.271805) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.819000 ( 0.271805) 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--: 1e+00 0 1e+00 0 1990 ( 0) 105 ( 8.9) 1990 106 --->fabia-------beagle2--: 1e+00 0 1e+00 0 1990 ( 0) 889 ( 12.6) 1990 889 --->fabia-------plink----: 1e+00 0 1e+00 0 1990 ( 0) 300 ( 19.1) 1990 301 --->fabia-------germline1: 1e+00 0 1e+00 0 1990 ( 0) 0 ( 0) 1990 0 --->fabia-------germline2: 1e+00 0 1e+00 0 1990 ( 0) 0 ( 0) 1990 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 1990 ( 0) 990 ( 0) 1990 990 --->beagle1-----beagle2--: 3.93e-18 -783 4.62e-172 -784 105 ( 8.9) 889 ( 12.6) 106 889 --->beagle1-----plink----: 3.93e-18 -195 2.81e-98 -195 105 ( 8.9) 300 ( 19.1) 106 301 --->beagle1-----germline1: 1e+00 0 1e+00 0 105 ( 8.9) 0 ( 0) 106 0 --->beagle1-----germline2: 1e+00 0 1e+00 0 105 ( 8.9) 0 ( 0) 106 0 --->beagle1-----dash-----: 1e+00 0 1e+00 0 105 ( 8.9) 990 ( 0) 106 990 --->beagle2-----plink----: 3.94e-18 589 9.93e-145 589 889 ( 12.6) 300 ( 19.1) 889 301 --->beagle2-----germline1: 1e+00 0 1e+00 0 889 ( 12.6) 0 ( 0) 889 0 --->beagle2-----germline2: 1e+00 0 1e+00 0 889 ( 12.6) 0 ( 0) 889 0 --->beagle2-----dash-----: 1e+00 0 1e+00 0 889 ( 12.6) 990 ( 0) 889 990 --->plink-------germline1: 1e+00 0 1e+00 0 300 ( 19.1) 0 ( 0) 301 0 --->plink-------germline2: 1e+00 0 1e+00 0 300 ( 19.1) 0 ( 0) 301 0 --->plink-------dash-----: 1e+00 0 1e+00 0 300 ( 19.1) 990 ( 0) 301 990 --->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) 990 ( 0) 0 990 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 990 ( 0) 0 990 ######falsePSample###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 0 ( 0) 885 ( 8.9) 0 884 --->fabia-------beagle2--: 1e+00 0 1e+00 0 0 ( 0) 101 ( 12.6) 0 101 --->fabia-------plink----: 1e+00 0 1e+00 0 0 ( 0) 690 ( 19.1) 0 689 --->fabia-------germline1: 1e+00 0 1e+00 0 0 ( 0) 990 ( 0) 0 990 --->fabia-------germline2: 1e+00 0 1e+00 0 0 ( 0) 990 ( 0) 0 990 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 3.93e-18 783 4.62e-172 784 885 ( 8.9) 101 ( 12.6) 884 101 --->beagle1-----plink----: 3.93e-18 195 2.81e-98 195 885 ( 8.9) 690 ( 19.1) 884 689 --->beagle1-----germline1: 1e+00 0 1e+00 0 885 ( 8.9) 990 ( 0) 884 990 --->beagle1-----germline2: 1e+00 0 1e+00 0 885 ( 8.9) 990 ( 0) 884 990 --->beagle1-----dash-----: 1e+00 0 1e+00 0 885 ( 8.9) 0 ( 0) 884 0 --->beagle2-----plink----: 3.94e-18 -589 9.93e-145 -589 101 ( 12.6) 690 ( 19.1) 101 689 --->beagle2-----germline1: 1e+00 0 1e+00 0 101 ( 12.6) 990 ( 0) 101 990 --->beagle2-----germline2: 1e+00 0 1e+00 0 101 ( 12.6) 990 ( 0) 101 990 --->beagle2-----dash-----: 1e+00 0 1e+00 0 101 ( 12.6) 0 ( 0) 101 0 --->plink-------germline1: 1e+00 0 1e+00 0 690 ( 19.1) 990 ( 0) 689 990 --->plink-------germline2: 1e+00 0 1e+00 0 690 ( 19.1) 990 ( 0) 689 990 --->plink-------dash-----: 1e+00 0 1e+00 0 690 ( 19.1) 0 ( 0) 689 0 --->germline1---germline2: 1e+00 0 1e+00 0 990 ( 0) 990 ( 0) 990 990 --->germline1---dash-----: 1e+00 0 1e+00 0 990 ( 0) 0 ( 0) 990 0 --->germline2---dash-----: 1e+00 0 1e+00 0 990 ( 0) 0 ( 0) 990 0 ######falseNSample###### --->fabia-------beagle1--: 5.26e-14 6 1.42e-19 4.53 4.59 ( 4.03) 0.06 ( 0.278) 4 0 --->fabia-------beagle2--: 2.31e-09 3.5 1.1e-10 2.78 4.59 ( 4.03) 1.81 ( 2.72) 4 0 --->fabia-------plink----: 1e+00 0 1e+00 0 4.59 ( 4.03) 0 ( 0) 4 0 --->fabia-------germline1: 1e+00 0 1e+00 0 4.59 ( 4.03) 0 ( 0) 4 0 --->fabia-------germline2: 1e+00 0 1e+00 0 4.59 ( 4.03) 0 ( 0) 4 0 --->fabia-------dash-----: 1e+00 0 1e+00 0 4.59 ( 4.03) 10 ( 0) 4 10 --->beagle1-----beagle2--: 1e+00 0.000000 1.32e-09 -1.750000 0.060000 ( 0.277798) 1.810000 ( 2.718047) 0.000000 0.000000 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.060000 ( 0.277798) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.060000 ( 0.277798) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.060000 ( 0.277798) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 0.06 ( 0.278) 10 ( 0) 0 10 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 1.810000 ( 2.718047) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.810000 ( 2.718047) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.810000 ( 2.718047) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 1.81 ( 2.72) 10 ( 0) 0 10 --->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) 10 ( 0) 0 10 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0 ( 0) 10 ( 0) 0 10 --->germline2---dash-----: 1e+00 0 1e+00 0 0 ( 0) 10 ( 0) 0 10 ######truePSample###### --->fabia-------beagle1--: 5.26e-14 -6 1.42e-19 -4.53 5.41 ( 4.03) 9.94 ( 0.278) 6 10 --->fabia-------beagle2--: 2.31e-09 -3.5 1.1e-10 -2.78 5.41 ( 4.03) 8.19 ( 2.72) 6 10 --->fabia-------plink----: 1e+00 0 1e+00 0 5.41 ( 4.03) 10 ( 0) 6 10 --->fabia-------germline1: 1e+00 0 1e+00 0 5.41 ( 4.03) 10 ( 0) 6 10 --->fabia-------germline2: 1e+00 0 1e+00 0 5.41 ( 4.03) 10 ( 0) 6 10 --->fabia-------dash-----: 3.87e-18 -720 7.22e-192 -720 5.41 ( 4.03) 726 ( 7.71) 6 725 --->beagle1-----beagle2--: 1e+00 0 1.32e-09 1.75 9.94 ( 0.278) 8.19 ( 2.72) 10 10 --->beagle1-----plink----: 1e+00 0 1e+00 0 9.94 ( 0.278) 10 ( 0) 10 10 --->beagle1-----germline1: 1e+00 0 1e+00 0 9.94 ( 0.278) 10 ( 0) 10 10 --->beagle1-----germline2: 1e+00 0 1e+00 0 9.94 ( 0.278) 10 ( 0) 10 10 --->beagle1-----dash-----: 3.88e-18 -716 6.13e-197 -716 9.94 ( 0.278) 726 ( 7.71) 10 725 --->beagle2-----plink----: 1e+00 0 1e+00 0 8.19 ( 2.72) 10 ( 0) 10 10 --->beagle2-----germline1: 1e+00 0 1e+00 0 8.19 ( 2.72) 10 ( 0) 10 10 --->beagle2-----germline2: 1e+00 0 1e+00 0 8.19 ( 2.72) 10 ( 0) 10 10 --->beagle2-----dash-----: 3.88e-18 -717 2.01e-195 -718 8.19 ( 2.72) 726 ( 7.71) 10 725 --->plink-------germline1: 1e+00 0 1e+00 0 10 ( 0) 10 ( 0) 10 10 --->plink-------germline2: 1e+00 0 1e+00 0 10 ( 0) 10 ( 0) 10 10 --->plink-------dash-----: 1e+00 0 1e+00 0 10 ( 0) 726 ( 7.71) 10 725 --->germline1---germline2: 1e+00 0 1e+00 0 10 ( 0) 10 ( 0) 10 10 --->germline1---dash-----: 1e+00 0 1e+00 0 10 ( 0) 726 ( 7.71) 10 725 --->germline2---dash-----: 1e+00 0 1e+00 0 10 ( 0) 726 ( 7.71) 10 725