Results: Wilcoxon-Rank-Sum Wilcoxon-median t-test t-test-mean mean1 (std) mean2 (std) median1 median2 ######Matthews###### --->fabia-------beagle1--: 1.02e-13 0.098851 8.2e-09 0.087456 0.970115 ( 0.115910) 0.882659 ( 0.062549) 0.992312 0.894687 --->fabia-------beagle2--: 2.26e-14 0.148738 2.96e-14 0.138062 0.970115 ( 0.115910) 0.832053 ( 0.086788) 0.992312 0.836215 --->fabia-------plink----: 3.96e-18 0.899966 4.56e-94 0.881912 0.970115 ( 0.115910) 0.088203 ( 0.013690) 0.992312 0.090072 --->fabia-------germline1: 1.2e-11 0.014038 2.71e-02 0.013690 0.970115 ( 0.115910) 0.956424 ( 0.137653) 0.992312 0.974183 --->fabia-------germline2: 1.15e-11 0.014106 1.86e-02 0.014990 0.970115 ( 0.115910) 0.955125 ( 0.138138) 0.992312 0.974183 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.970115 ( 0.115910) 0.000000 ( 0.000000) 0.992312 0.000000 --->beagle1-----beagle2--: 1.67e-10 0.059103 9.13e-11 0.050606 0.882659 ( 0.062549) 0.832053 ( 0.086788) 0.894687 0.836215 --->beagle1-----plink----: 3.96e-18 0.798922 1.09e-109 0.794456 0.882659 ( 0.062549) 0.088203 ( 0.013690) 0.894687 0.090072 --->beagle1-----germline1: 1.44e-15 -0.086265 8.79e-06 -0.073765 0.882659 ( 0.062549) 0.956424 ( 0.137653) 0.894687 0.974183 --->beagle1-----germline2: 5.26e-15 -0.085777 1.33e-05 -0.072466 0.882659 ( 0.062549) 0.955125 ( 0.138138) 0.894687 0.974183 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.882659 ( 0.062549) 0.000000 ( 0.000000) 0.894687 0.000000 --->beagle2-----plink----: 3.96e-18 0.748984 4.2e-93 0.743850 0.832053 ( 0.086788) 0.088203 ( 0.013690) 0.836215 0.090072 --->beagle2-----germline1: 1.29e-15 -0.136654 1.5e-10 -0.124371 0.832053 ( 0.086788) 0.956424 ( 0.137653) 0.836215 0.974183 --->beagle2-----germline2: 1.29e-15 -0.135357 2.27e-10 -0.123072 0.832053 ( 0.086788) 0.955125 ( 0.138138) 0.836215 0.974183 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.832053 ( 0.086788) 0.000000 ( 0.000000) 0.836215 0.000000 --->plink-------germline1: 3.96e-18 -0.884870 7.63e-86 -0.868222 0.088203 ( 0.013690) 0.956424 ( 0.137653) 0.090072 0.974183 --->plink-------germline2: 3.96e-18 -0.884765 1.34e-85 -0.866922 0.088203 ( 0.013690) 0.955125 ( 0.138138) 0.090072 0.974183 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.088203 ( 0.013690) 0.000000 ( 0.000000) 0.090072 0.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 0.001300 0.956424 ( 0.137653) 0.955125 ( 0.138138) 0.974183 0.974183 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.956424 ( 0.137653) 0.000000 ( 0.000000) 0.974183 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.955125 ( 0.138138) 0.000000 ( 0.000000) 0.974183 0.000000 ######F1###### --->fabia-------beagle1--: 1.04e-13 0.103360 1.23e-08 0.090996 0.968562 ( 0.121514) 0.877566 ( 0.066884) 0.992283 0.890536 --->fabia-------beagle2--: 2.26e-14 0.162167 2.12e-14 0.153157 0.968562 ( 0.121514) 0.815405 ( 0.102629) 0.992283 0.823049 --->fabia-------plink----: 5.78e-18 0.974125 1.12e-91 0.952402 0.968562 ( 0.121514) 0.016160 ( 0.002852) 0.992283 0.016464 --->fabia-------germline1: 1.42e-11 0.014251 2.72e-02 0.012460 0.968562 ( 0.121514) 0.956102 ( 0.137622) 0.992283 0.973855 --->fabia-------germline2: 1.32e-11 0.014333 1.82e-02 0.013809 0.968562 ( 0.121514) 0.954754 ( 0.138150) 0.992283 0.973855 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.968562 ( 0.121514) 0.000000 ( 0.000000) 0.992283 0.000000 --->beagle1-----beagle2--: 1.33e-11 0.070539 1.06e-11 0.062162 0.877566 ( 0.066884) 0.815405 ( 0.102629) 0.890536 0.823049 --->beagle1-----plink----: 3.96e-18 0.867526 7.04e-112 0.861406 0.877566 ( 0.066884) 0.016160 ( 0.002852) 0.890536 0.016464 --->beagle1-----germline1: 1.44e-15 -0.090540 3.32e-06 -0.078535 0.877566 ( 0.066884) 0.956102 ( 0.137622) 0.890536 0.973855 --->beagle1-----germline2: 4.98e-15 -0.089960 5.17e-06 -0.077187 0.877566 ( 0.066884) 0.954754 ( 0.138150) 0.890536 0.973855 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.877566 ( 0.066884) 0.000000 ( 0.000000) 0.890536 0.000000 --->beagle2-----plink----: 3.96e-18 0.808553 1.9e-90 0.799245 0.815405 ( 0.102629) 0.016160 ( 0.002852) 0.823049 0.016464 --->beagle2-----germline1: 1.29e-15 -0.150440 1.29e-11 -0.140697 0.815405 ( 0.102629) 0.956102 ( 0.137622) 0.823049 0.973855 --->beagle2-----germline2: 1.29e-15 -0.148788 1.96e-11 -0.139349 0.815405 ( 0.102629) 0.954754 ( 0.138150) 0.823049 0.973855 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.815405 ( 0.102629) 0.000000 ( 0.000000) 0.823049 0.000000 --->plink-------germline1: 8.46e-18 -0.957941 8.13e-86 -0.939942 0.016160 ( 0.002852) 0.956102 ( 0.137622) 0.016464 0.973855 --->plink-------germline2: 8.46e-18 -0.957865 1.37e-85 -0.938593 0.016160 ( 0.002852) 0.954754 ( 0.138150) 0.016464 0.973855 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.016160 ( 0.002852) 0.000000 ( 0.000000) 0.016464 0.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 0.001348 0.956102 ( 0.137622) 0.954754 ( 0.138150) 0.973855 0.973855 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.956102 ( 0.137622) 0.000000 ( 0.000000) 0.973855 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.954754 ( 0.138150) 0.000000 ( 0.000000) 0.973855 0.000000 ######accuracy###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.999996 ( 1.26e-05) 0.999959 ( 2.16e-05) 0.999999 0.999963 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.999996 ( 1.26e-05) 0.999944 ( 2.75e-05) 0.999999 0.999945 --->fabia-------plink----: 3.96e-18 0.022310 5.54e-115 0.022330 0.999996 ( 1.26e-05) 0.977666 ( 0.001619) 0.999999 0.977869 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.999996 ( 1.26e-05) 0.999991 ( 5.37e-06) 0.999999 0.999990 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.999996 ( 1.26e-05) 0.999990 ( 8.2e-06) 0.999999 0.999990 --->fabia-------dash-----: 4.19e-18 0.000138 4.5e-77 0.000180 0.999996 ( 1.26e-05) 0.999816 ( 2.48e-05) 0.999999 0.999810 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.999959 ( 2.16e-05) 0.999944 ( 2.75e-05) 0.999963 0.999945 --->beagle1-----plink----: 3.96e-18 0.022271 6.19e-115 0.022293 0.999959 ( 2.16e-05) 0.977666 ( 0.001619) 0.999963 0.977869 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.999959 ( 2.16e-05) 0.999991 ( 5.37e-06) 0.999963 0.999990 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.999959 ( 2.16e-05) 0.999990 ( 8.2e-06) 0.999963 0.999990 --->beagle1-----dash-----: 3.95e-18 0.000104 6.3e-72 0.000143 0.999959 ( 2.16e-05) 0.999816 ( 2.48e-05) 0.999963 0.999810 --->beagle2-----plink----: 3.96e-18 0.022258 5.72e-115 0.022278 0.999944 ( 2.75e-05) 0.977666 ( 0.001619) 0.999945 0.977869 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.999944 ( 2.75e-05) 0.999991 ( 5.37e-06) 0.999945 0.999990 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.999944 ( 2.75e-05) 0.999990 ( 8.2e-06) 0.999945 0.999990 --->beagle2-----dash-----: 3.96e-18 0.000102 5.1e-66 0.000128 0.999944 ( 2.75e-05) 0.999816 ( 2.48e-05) 0.999945 0.999810 --->plink-------germline1: 3.96e-18 -0.022305 5.55e-115 -0.022325 0.977666 ( 0.001619) 0.999991 ( 5.37e-06) 0.977869 0.999990 --->plink-------germline2: 3.96e-18 -0.022305 5.41e-115 -0.022324 0.977666 ( 0.001619) 0.999990 ( 8.2e-06) 0.977869 0.999990 --->plink-------dash-----: 3.96e-18 -0.022132 1.12e-114 -0.022150 0.977666 ( 0.001619) 0.999816 ( 2.48e-05) 0.977869 0.999810 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.999991 ( 5.37e-06) 0.999990 ( 8.2e-06) 0.999990 0.999990 --->germline1---dash-----: 4.32e-18 0.000190 1.1e-80 0.000174 0.999991 ( 5.37e-06) 0.999816 ( 2.48e-05) 0.999990 0.999810 --->germline2---dash-----: 4.51e-18 0.000190 8.47e-80 0.000174 0.999990 ( 8.2e-06) 0.999816 ( 2.48e-05) 0.999990 0.999810 ######FPR###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 1.92e-06 ( 1.2e-05) 6.49e-06 ( 1.15e-05) 0.000000 3e-07 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 1.92e-06 ( 1.2e-05) 3.91e-07 ( 9.59e-07) 0.000000 0.000000 --->fabia-------plink----: 3.96e-18 -0.022316 5.8e-115 -0.022335 1.92e-06 ( 1.2e-05) 0.022337 ( 0.001620) 0.000000 0.022135 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 1.92e-06 ( 1.2e-05) 7.03e-08 ( 2.77e-07) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 1.92e-06 ( 1.2e-05) 6.7e-07 ( 6e-06) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 1.92e-06 ( 1.2e-05) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 6.49e-06 ( 1.15e-05) 3.91e-07 ( 9.59e-07) 3e-07 0.000000 --->beagle1-----plink----: 3.96e-18 -0.022309 5.9e-115 -0.022331 6.49e-06 ( 1.15e-05) 0.022337 ( 0.001620) 3e-07 0.022135 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 6.49e-06 ( 1.15e-05) 7.03e-08 ( 2.77e-07) 3e-07 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 6.49e-06 ( 1.15e-05) 6.7e-07 ( 6e-06) 3e-07 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 6.49e-06 ( 1.15e-05) 0.000000 ( 0.000000) 3e-07 0.000000 --->beagle2-----plink----: 3.96e-18 -0.022317 5.74e-115 -0.022337 3.91e-07 ( 9.59e-07) 0.022337 ( 0.001620) 0.000000 0.022135 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 3.91e-07 ( 9.59e-07) 7.03e-08 ( 2.77e-07) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 3.91e-07 ( 9.59e-07) 6.7e-07 ( 6e-06) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 3.91e-07 ( 9.59e-07) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 3.96e-18 0.022316 5.72e-115 0.022337 0.022337 ( 0.001620) 7.03e-08 ( 2.77e-07) 0.022135 0.000000 --->plink-------germline2: 3.96e-18 0.022315 5.57e-115 0.022337 0.022337 ( 0.001620) 6.7e-07 ( 6e-06) 0.022135 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.022337 ( 0.001620) 0.000000 ( 0.000000) 0.022135 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 7.03e-08 ( 2.77e-07) 6.7e-07 ( 6e-06) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 7.03e-08 ( 2.77e-07) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 6.7e-07 ( 6e-06) 0.000000 ( 0.000000) 0.000000 0.000000 ######FDR###### --->fabia-------beagle1--: 6.59e-10 -0.036000 6.6e-02 -0.022459 0.015483 ( 0.094989) 0.037942 ( 0.066226) 0.000000 0.002537 --->fabia-------beagle2--: 1e+00 0.000000 1.84e-01 0.012794 0.015483 ( 0.094989) 0.002689 ( 0.006012) 0.000000 0.000000 --->fabia-------plink----: 3.96e-18 -0.991578 9.76e-103 -0.976369 0.015483 ( 0.094989) 0.991852 ( 0.001442) 0.000000 0.991700 --->fabia-------germline1: 1e+00 0.000000 1.16e-01 0.015081 0.015483 ( 0.094989) 0.000401 ( 0.001674) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 2.05e-01 0.012581 0.015483 ( 0.094989) 0.002901 ( 0.025015) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.015483 ( 0.094989) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 8.93e-06 0.064454 6.81e-07 0.035253 0.037942 ( 0.066226) 0.002689 ( 0.006012) 0.002537 0.000000 --->beagle1-----plink----: 3.96e-18 -0.981308 7.16e-117 -0.953910 0.037942 ( 0.066226) 0.991852 ( 0.001442) 0.002537 0.991700 --->beagle1-----germline1: 8.55e-13 0.039421 1.24e-07 0.037540 0.037942 ( 0.066226) 0.000401 ( 0.001674) 0.002537 0.000000 --->beagle1-----germline2: 9.3e-12 0.038634 4.03e-06 0.035040 0.037942 ( 0.066226) 0.002901 ( 0.025015) 0.002537 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.037942 ( 0.066226) 0.000000 ( 0.000000) 0.002537 0.000000 --->beagle2-----plink----: 3.96e-18 -0.990940 1.39e-219 -0.989163 0.002689 ( 0.006012) 0.991852 ( 0.001442) 0.000000 0.991700 --->beagle2-----germline1: 1e+00 0.000000 5.11e-04 0.002288 0.002689 ( 0.006012) 0.000401 ( 0.001674) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 9.35e-01 -0.000212 0.002689 ( 0.006012) 0.002901 ( 0.025015) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.002689 ( 0.006012) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 3.96e-18 0.991592 8.67e-265 0.991451 0.991852 ( 0.001442) 0.000401 ( 0.001674) 0.991700 0.000000 --->plink-------germline2: 3.96e-18 0.991566 4.18e-160 0.988951 0.991852 ( 0.001442) 0.002901 ( 0.025015) 0.991700 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.991852 ( 0.001442) 0.000000 ( 0.000000) 0.991700 0.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 -0.002500 0.000401 ( 0.001674) 0.002901 ( 0.025015) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000401 ( 0.001674) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.002901 ( 0.025015) 0.000000 ( 0.000000) 0.000000 0.000000 ######specifity###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.999998 ( 1.2e-05) 0.999994 ( 1.15e-05) 1.000000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.999998 ( 1.2e-05) 1.000000 ( 9.6e-07) 1.000000 1.000000 --->fabia-------plink----: 3.96e-18 0.022316 5.8e-115 0.022335 0.999998 ( 1.2e-05) 0.977663 ( 0.001620) 1.000000 0.977865 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.999998 ( 1.2e-05) 1.000000 ( 2.79e-07) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.999998 ( 1.2e-05) 0.999999 ( 6e-06) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.999998 ( 1.2e-05) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.999994 ( 1.15e-05) 1.000000 ( 9.6e-07) 1.000000 1.000000 --->beagle1-----plink----: 3.96e-18 0.022310 5.9e-115 0.022331 0.999994 ( 1.15e-05) 0.977663 ( 0.001620) 1.000000 0.977865 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.999994 ( 1.15e-05) 1.000000 ( 2.79e-07) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.999994 ( 1.15e-05) 0.999999 ( 6e-06) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.999994 ( 1.15e-05) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----plink----: 3.96e-18 0.022316 5.74e-115 0.022337 1.000000 ( 9.6e-07) 0.977663 ( 0.001620) 1.000000 0.977865 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 9.6e-07) 1.000000 ( 2.79e-07) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 9.6e-07) 0.999999 ( 6e-06) 1.000000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 9.6e-07) 1.000000 ( 0.000000) 1.000000 1.000000 --->plink-------germline1: 3.96e-18 -0.022317 5.72e-115 -0.022337 0.977663 ( 0.001620) 1.000000 ( 2.79e-07) 0.977865 1.000000 --->plink-------germline2: 3.96e-18 -0.022317 5.58e-115 -0.022337 0.977663 ( 0.001620) 0.999999 ( 6e-06) 0.977865 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.977663 ( 0.001620) 1.000000 ( 0.000000) 0.977865 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 2.79e-07) 0.999999 ( 6e-06) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 2.79e-07) 1.000000 ( 0.000000) 1.000000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.999999 ( 6e-06) 1.000000 ( 0.000000) 1.000000 1.000000 ######sensitivity###### --->fabia-------beagle1--: 1.03e-16 0.157109 6.23e-19 0.155692 0.969399 ( 0.100668) 0.813707 ( 0.094786) 0.985594 0.826734 --->fabia-------beagle2--: 7.67e-17 0.270412 4.06e-27 0.267525 0.969399 ( 0.100668) 0.701873 ( 0.140558) 0.985594 0.699860 --->fabia-------plink----: 1.12e-16 -0.016949 3.23e-01 -0.010403 0.969399 ( 0.100668) 0.979802 ( 0.140682) 0.985594 1.000000 --->fabia-------germline1: 7.09e-13 0.027606 6.58e-04 0.035487 0.969399 ( 0.100668) 0.933911 ( 0.135486) 0.985594 0.949042 --->fabia-------germline2: 7.09e-13 0.027606 6.58e-04 0.035487 0.969399 ( 0.100668) 0.933911 ( 0.135486) 0.985594 0.949042 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.969399 ( 0.100668) 0.000000 ( 0.000000) 0.985594 0.000000 --->beagle1-----beagle2--: 1.17e-14 0.129172 2.55e-19 0.111834 0.813707 ( 0.094786) 0.701873 ( 0.140558) 0.826734 0.699860 --->beagle1-----plink----: 1.29e-15 -0.175632 2e-15 -0.166095 0.813707 ( 0.094786) 0.979802 ( 0.140682) 0.826734 1.000000 --->beagle1-----germline1: 2.72e-15 -0.129451 2.53e-10 -0.120204 0.813707 ( 0.094786) 0.933911 ( 0.135486) 0.826734 0.949042 --->beagle1-----germline2: 2.72e-15 -0.129451 2.53e-10 -0.120204 0.813707 ( 0.094786) 0.933911 ( 0.135486) 0.826734 0.949042 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.813707 ( 0.094786) 0.000000 ( 0.000000) 0.826734 0.000000 --->beagle2-----plink----: 1.29e-15 -0.290343 6.23e-23 -0.277928 0.701873 ( 0.140558) 0.979802 ( 0.140682) 0.699860 1.000000 --->beagle2-----germline1: 1.4e-15 -0.243461 5.85e-19 -0.232038 0.701873 ( 0.140558) 0.933911 ( 0.135486) 0.699860 0.949042 --->beagle2-----germline2: 1.4e-15 -0.243461 5.85e-19 -0.232038 0.701873 ( 0.140558) 0.933911 ( 0.135486) 0.699860 0.949042 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.701873 ( 0.140558) 0.000000 ( 0.000000) 0.699860 0.000000 --->plink-------germline1: 1.81e-17 0.050172 1.64e-40 0.045890 0.979802 ( 0.140682) 0.933911 ( 0.135486) 1.000000 0.949042 --->plink-------germline2: 1.81e-17 0.050172 1.64e-40 0.045890 0.979802 ( 0.140682) 0.933911 ( 0.135486) 1.000000 0.949042 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.979802 ( 0.140682) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.933911 ( 0.135486) 0.933911 ( 0.135486) 0.949042 0.949042 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.933911 ( 0.135486) 0.000000 ( 0.000000) 0.949042 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.933911 ( 0.135486) 0.000000 ( 0.000000) 0.949042 0.000000 ######trueN###### --->fabia-------beagle1--: 3.21e-18 2e+08 0e+00 2e+08 4e+08 ( 5574) 2e+08 ( 5354) 4e+08 2e+08 --->fabia-------beagle2--: 6.39e-19 2e+08 0e+00 2e+08 4e+08 ( 5574) 2e+08 ( 4981) 4e+08 2e+08 --->fabia-------plink----: 3.96e-18 2.04e+08 2.97e-279 2.04e+08 4e+08 ( 5574) 1.95e+08 ( 324249) 4e+08 1.96e+08 --->fabia-------germline1: 4.44e-21 2e+08 0e+00 2e+08 4e+08 ( 5574) 2e+08 ( 4958) 4e+08 2e+08 --->fabia-------germline2: 5.86e-21 2e+08 0e+00 2e+08 4e+08 ( 5574) 2e+08 ( 5138) 4e+08 2e+08 --->fabia-------dash-----: 6.31e-23 2e+08 0e+00 2e+08 4e+08 ( 5574) 2e+08 ( 4961) 4e+08 2e+08 --->beagle1-----beagle2--: 1.75e-07 -3241 6.71e-07 -1219 2e+08 ( 5354) 2e+08 ( 4981) 2e+08 2e+08 --->beagle1-----plink----: 3.96e-18 4461715 5.89e-115 4465342 2e+08 ( 5354) 1.95e+08 ( 324249) 2e+08 1.96e+08 --->beagle1-----germline1: 1.6e-12 -1424 1.65e-07 -1283 2e+08 ( 5354) 2e+08 ( 4958) 2e+08 2e+08 --->beagle1-----germline2: 1.81e-11 -1349 2.56e-05 -1163 2e+08 ( 5354) 2e+08 ( 5138) 2e+08 2e+08 --->beagle1-----dash-----: 5.33e-13 -1522 1.44e-07 -1297 2e+08 ( 5354) 2e+08 ( 4961) 2e+08 2e+08 --->beagle2-----plink----: 3.96e-18 4463411 5.73e-115 4466561 2e+08 ( 4981) 1.95e+08 ( 324249) 2e+08 1.96e+08 --->beagle2-----germline1: 1.06e-04 -94.8 2.14e-03 -64.2 2e+08 ( 4981) 2e+08 ( 4958) 2e+08 2e+08 --->beagle2-----germline2: 4.37e-04 -83 6.49e-01 55.8 2e+08 ( 4981) 2e+08 ( 5138) 2e+08 2e+08 --->beagle2-----dash-----: 3.7e-08 -143 9.06e-05 -78.3 2e+08 ( 4981) 2e+08 ( 4961) 2e+08 2e+08 --->plink-------germline1: 3.96e-18 -4463479 5.71e-115 -4466625 1.95e+08 ( 324249) 2e+08 ( 4958) 1.96e+08 2e+08 --->plink-------germline2: 3.96e-18 -4462838 5.56e-115 -4466505 1.95e+08 ( 324249) 2e+08 ( 5138) 1.96e+08 2e+08 --->plink-------dash-----: 3.96e-18 -4463479 5.69e-115 -4466639 1.95e+08 ( 324249) 2e+08 ( 4961) 1.96e+08 2e+08 --->germline1---germline2: 1e+00 0 3.2e-01 120 2e+08 ( 4958) 2e+08 ( 5138) 2e+08 2e+08 --->germline1---dash-----: 1e+00 0 1.28e-02 -14.1 2e+08 ( 4958) 2e+08 ( 4961) 2e+08 2e+08 --->germline2---dash-----: 1e+00 0 2.67e-01 -134 2e+08 ( 5138) 2e+08 ( 4961) 2e+08 2e+08 ######falseP###### --->fabia-------beagle1--: 6.58e-10 -1089 3.36e-01 -531 767 ( 4785) 1297 ( 2290) 0 60 --->fabia-------beagle2--: 1e+00 0.000000 1.55e-01 688.440000 766.720000 (4784.920214) 78.280000 (191.769436) 0.000000 0.000000 --->fabia-------plink----: 3.96e-18 -4462348 5.92e-115 -4465872 767 ( 4785) 4466639 ( 323872) 0 4426168 --->fabia-------germline1: 1e+00 0.000000 1.19e-01 752.660000 766.720000 (4784.920214) 14.060000 (55.425229) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 2.05e-01 632.660000 766.720000 (4784.920214) 134.060000 (1199.859771) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 766.720000 (4784.920214) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1.75e-07 3242 6.71e-07 1219 1297 ( 2290) 78.3 ( 192) 60 0 --->beagle1-----plink----: 3.96e-18 -4461746 5.89e-115 -4465342 1297 ( 2290) 4466639 ( 323872) 60 4426168 --->beagle1-----germline1: 1.6e-12 1424 1.65e-07 1283 1297 ( 2290) 14.1 ( 55.4) 60 0 --->beagle1-----germline2: 1.81e-11 1349 2.56e-05 1163 1297 ( 2290) 134 ( 1200) 60 0 --->beagle1-----dash-----: 1e+00 0 1e+00 0 1297 ( 2290) 0 ( 0) 60 0 --->beagle2-----plink----: 3.96e-18 -4463452 5.73e-115 -4466561 78.3 ( 192) 4466639 ( 323872) 0 4426168 --->beagle2-----germline1: 1e+00 0.000000 2.14e-03 64.220000 78.280000 (191.769436) 14.060000 (55.425229) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 6.49e-01 -55.780000 78.280000 (191.769436) 134.060000 (1199.859771) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 78.280000 (191.769436) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 3.96e-18 4463466 5.71e-115 4466625 4466639 ( 323872) 14.1 ( 55.4) 4426168 0 --->plink-------germline2: 3.96e-18 4462888 5.56e-115 4466505 4466639 ( 323872) 134 ( 1200) 4426168 0 --->plink-------dash-----: 1e+00 0 1e+00 0 4466639 ( 323872) 0 ( 0) 4426168 0 --->germline1---germline2: 1e+00 0.000000 3.2e-01 -120.000000 14.060000 (55.425229) 134.060000 (1199.859771) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 14.060000 (55.425229) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 134.060000 (1199.859771) 0.000000 ( 0.000000) 0.000000 0.000000 ######falseN###### --->fabia-------beagle1--: 1.72e-17 -5881 6.31e-28 -6086 818 ( 952) 6904 ( 3741) 546 6371 --->fabia-------beagle2--: 6.41e-18 -10104 1.48e-33 -10283 818 ( 952) 11101 ( 5542) 546 11061 --->fabia-------plink----: 1.12e-16 642 1.08e-06 662 818 ( 952) 156 ( 1074) 546 0 --->fabia-------germline1: 3.54e-13 -1033 2.88e-13 -1043 818 ( 952) 1861 ( 1090) 546 1929 --->fabia-------germline2: 3.54e-13 -1033 2.88e-13 -1043 818 ( 952) 1861 ( 1090) 546 1929 --->fabia-------dash-----: 5.78e-18 -37116 1.41e-84 -35889 818 ( 952) 36707 ( 4961) 546 37968 --->beagle1-----beagle2--: 1.17e-14 -4881 2.91e-19 -4197 6904 ( 3741) 11101 ( 5542) 6371 11061 --->beagle1-----plink----: 7.24e-17 6595 6.38e-30 6748 6904 ( 3741) 156 ( 1074) 6371 0 --->beagle1-----germline1: 4.55e-16 4871 2.04e-22 5043 6904 ( 3741) 1861 ( 1090) 6371 1929 --->beagle1-----germline2: 4.55e-16 4871 2.04e-22 5043 6904 ( 3741) 1861 ( 1090) 6371 1929 --->beagle1-----dash-----: 3.96e-18 -30436 7.55e-78 -29803 6904 ( 3741) 36707 ( 4961) 6371 37968 --->beagle2-----plink----: 1.57e-17 10838 6.68e-34 10945 11101 ( 5542) 156 ( 1074) 11061 0 --->beagle2-----germline1: 3.29e-17 9137 2.52e-29 9240 11101 ( 5542) 1861 ( 1090) 11061 1929 --->beagle2-----germline2: 3.29e-17 9137 2.52e-29 9240 11101 ( 5542) 1861 ( 1090) 11061 1929 --->beagle2-----dash-----: 3.96e-18 -25922 9.3e-66 -25606 11101 ( 5542) 36707 ( 4961) 11061 37968 --->plink-------germline1: 1.81e-17 -1883 2.05e-41 -1705 156 ( 1074) 1861 ( 1090) 0 1929 --->plink-------germline2: 1.81e-17 -1883 2.05e-41 -1705 156 ( 1074) 1861 ( 1090) 0 1929 --->plink-------dash-----: 8.46e-18 -37953 3.5e-81 -36551 156 ( 1074) 36707 ( 4961) 0 37968 --->germline1---germline2: 1e+00 0 1e+00 0 1861 ( 1090) 1861 ( 1090) 1929 1929 --->germline1---dash-----: 4.63e-19 -36000 1.07e-80 -34846 1861 ( 1090) 36707 ( 4961) 1929 37968 --->germline2---dash-----: 4.63e-19 -36000 1.07e-80 -34846 1861 ( 1090) 36707 ( 4961) 1929 37968 ######trueP###### --->fabia-------beagle1--: 1.72e-17 5881 6.31e-28 6086 35889 ( 5320) 29803 ( 5186) 37240 30526 --->fabia-------beagle2--: 6.41e-18 10101 1.48e-33 10283 35889 ( 5320) 25606 ( 5970) 37240 26098 --->fabia-------plink----: 1.12e-16 -641 1.08e-06 -662 35889 ( 5320) 36551 ( 5874) 37240 37968 --->fabia-------germline1: 3.54e-13 1033 2.88e-13 1043 35889 ( 5320) 34846 ( 5665) 37240 36000 --->fabia-------germline2: 3.54e-13 1033 2.88e-13 1043 35889 ( 5320) 34846 ( 5665) 37240 36000 --->fabia-------dash-----: 1e+00 0 1e+00 0 35889 ( 5320) 0 ( 0) 37240 0 --->beagle1-----beagle2--: 1.17e-14 4880 2.91e-19 4197 29803 ( 5186) 25606 ( 5970) 30526 26098 --->beagle1-----plink----: 7.24e-17 -6595 6.38e-30 -6748 29803 ( 5186) 36551 ( 5874) 30526 37968 --->beagle1-----germline1: 4.55e-16 -4871 2.04e-22 -5043 29803 ( 5186) 34846 ( 5665) 30526 36000 --->beagle1-----germline2: 4.55e-16 -4871 2.04e-22 -5043 29803 ( 5186) 34846 ( 5665) 30526 36000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 29803 ( 5186) 0 ( 0) 30526 0 --->beagle2-----plink----: 1.57e-17 -10838 6.68e-34 -10945 25606 ( 5970) 36551 ( 5874) 26098 37968 --->beagle2-----germline1: 3.29e-17 -9135 2.52e-29 -9240 25606 ( 5970) 34846 ( 5665) 26098 36000 --->beagle2-----germline2: 3.29e-17 -9135 2.52e-29 -9240 25606 ( 5970) 34846 ( 5665) 26098 36000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 25606 ( 5970) 0 ( 0) 26098 0 --->plink-------germline1: 1.81e-17 1884 2.05e-41 1705 36551 ( 5874) 34846 ( 5665) 37968 36000 --->plink-------germline2: 1.81e-17 1884 2.05e-41 1705 36551 ( 5874) 34846 ( 5665) 37968 36000 --->plink-------dash-----: 1e+00 0 1e+00 0 36551 ( 5874) 0 ( 0) 37968 0 --->germline1---germline2: 1e+00 0 1e+00 0 34846 ( 5665) 34846 ( 5665) 36000 36000 --->germline1---dash-----: 1e+00 0 1e+00 0 34846 ( 5665) 0 ( 0) 36000 0 --->germline2---dash-----: 1e+00 0 1e+00 0 34846 ( 5665) 0 ( 0) 36000 0 ######MatthewsSnps###### --->fabia-------beagle1--: 1.22e-13 0.104254 5.43e-09 0.091407 0.968377 ( 0.118046) 0.876970 ( 0.066232) 0.991526 0.887631 --->fabia-------beagle2--: 2.52e-14 0.159655 5.4e-15 0.148224 0.968377 ( 0.118046) 0.820153 ( 0.091034) 0.991526 0.823972 --->fabia-------plink----: 4.08e-18 0.983317 4e-92 0.962057 0.968377 ( 0.118046) 0.006319 ( 0.009135) 0.991526 0.000000 --->fabia-------germline1: 1.15e-11 0.015417 2.48e-02 0.014253 0.968377 ( 0.118046) 0.954123 ( 0.137386) 0.991526 0.971598 --->fabia-------germline2: 1.09e-11 0.015492 1.67e-02 0.015707 0.968377 ( 0.118046) 0.952669 ( 0.138018) 0.991526 0.971598 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.968377 ( 0.118046) 0.000000 ( 0.000000) 0.991526 0.000000 --->beagle1-----beagle2--: 3.27e-11 0.066845 4.71e-12 0.056817 0.876970 ( 0.066232) 0.820153 ( 0.091034) 0.887631 0.823972 --->beagle1-----plink----: 3.96e-18 0.876071 2.92e-112 0.870650 0.876970 ( 0.066232) 0.006319 ( 0.009135) 0.887631 0.000000 --->beagle1-----germline1: 1.52e-15 -0.089829 4.53e-06 -0.077153 0.876970 ( 0.066232) 0.954123 ( 0.137386) 0.887631 0.971598 --->beagle1-----germline2: 6.73e-15 -0.089277 7.29e-06 -0.075699 0.876970 ( 0.066232) 0.952669 ( 0.138018) 0.887631 0.971598 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.876970 ( 0.066232) 0.000000 ( 0.000000) 0.887631 0.000000 --->beagle2-----plink----: 3.96e-18 0.819211 1.41e-96 0.813834 0.820153 ( 0.091034) 0.006319 ( 0.009135) 0.823972 0.000000 --->beagle2-----germline1: 1.29e-15 -0.146357 1.97e-11 -0.133970 0.820153 ( 0.091034) 0.954123 ( 0.137386) 0.823972 0.971598 --->beagle2-----germline2: 1.29e-15 -0.144874 3.16e-11 -0.132516 0.820153 ( 0.091034) 0.952669 ( 0.138018) 0.823972 0.971598 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.820153 ( 0.091034) 0.000000 ( 0.000000) 0.823972 0.000000 --->plink-------germline1: 4.33e-18 -0.967122 4.37e-85 -0.947804 0.006319 ( 0.009135) 0.954123 ( 0.137386) 0.000000 0.971598 --->plink-------germline2: 4.33e-18 -0.966823 7.49e-85 -0.946350 0.006319 ( 0.009135) 0.952669 ( 0.138018) 0.000000 0.971598 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.006319 ( 0.009135) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 0.001454 0.954123 ( 0.137386) 0.952669 ( 0.138018) 0.971598 0.971598 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.954123 ( 0.137386) 0.000000 ( 0.000000) 0.971598 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.952669 ( 0.138018) 0.000000 ( 0.000000) 0.971598 0.000000 ######F1Snps###### --->fabia-------beagle1--: 1.25e-13 0.100500 3.44e-08 0.087137 0.968562 ( 0.121514) 0.881425 ( 0.066207) 0.992283 0.891825 --->fabia-------beagle2--: 2.26e-14 0.162167 2.12e-14 0.153157 0.968562 ( 0.121514) 0.815405 ( 0.102629) 0.992283 0.823049 --->fabia-------plink----: 4.08e-18 0.817611 5.02e-90 0.800515 0.968562 ( 0.121514) 0.168047 ( 0.021974) 0.992283 0.173643 --->fabia-------germline1: 1.42e-11 0.014251 2.72e-02 0.012460 0.968562 ( 0.121514) 0.956102 ( 0.137622) 0.992283 0.973855 --->fabia-------germline2: 1.32e-11 0.014333 1.82e-02 0.013809 0.968562 ( 0.121514) 0.954754 ( 0.138150) 0.992283 0.973855 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.968562 ( 0.121514) 0.000000 ( 0.000000) 0.992283 0.000000 --->beagle1-----beagle2--: 2.45e-12 0.074439 6.27e-13 0.066020 0.881425 ( 0.066207) 0.815405 ( 0.102629) 0.891825 0.823049 --->beagle1-----plink----: 3.96e-18 0.718182 3.44e-101 0.713377 0.881425 ( 0.066207) 0.168047 ( 0.021974) 0.891825 0.173643 --->beagle1-----germline1: 1.52e-15 -0.087146 7.99e-06 -0.074677 0.881425 ( 0.066207) 0.956102 ( 0.137622) 0.891825 0.973855 --->beagle1-----germline2: 5.56e-15 -0.086393 1.22e-05 -0.073329 0.881425 ( 0.066207) 0.954754 ( 0.138150) 0.891825 0.973855 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.881425 ( 0.066207) 0.000000 ( 0.000000) 0.891825 0.000000 --->beagle2-----plink----: 3.96e-18 0.654800 4.94e-79 0.647357 0.815405 ( 0.102629) 0.168047 ( 0.021974) 0.823049 0.173643 --->beagle2-----germline1: 1.29e-15 -0.150440 1.29e-11 -0.140697 0.815405 ( 0.102629) 0.956102 ( 0.137622) 0.823049 0.973855 --->beagle2-----germline2: 1.29e-15 -0.148788 1.96e-11 -0.139349 0.815405 ( 0.102629) 0.954754 ( 0.138150) 0.823049 0.973855 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.815405 ( 0.102629) 0.000000 ( 0.000000) 0.823049 0.000000 --->plink-------germline1: 4.33e-18 -0.801899 1.03e-83 -0.788054 0.168047 ( 0.021974) 0.956102 ( 0.137622) 0.173643 0.973855 --->plink-------germline2: 4.33e-18 -0.801819 2.11e-83 -0.786706 0.168047 ( 0.021974) 0.954754 ( 0.138150) 0.173643 0.973855 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.168047 ( 0.021974) 0.000000 ( 0.000000) 0.173643 0.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 0.001348 0.956102 ( 0.137622) 0.954754 ( 0.138150) 0.973855 0.973855 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.956102 ( 0.137622) 0.000000 ( 0.000000) 0.973855 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.954754 ( 0.138150) 0.000000 ( 0.000000) 0.973855 0.000000 ######accuracySnps###### --->fabia-------beagle1--: 2.45e-14 0.017011 3.73e-14 0.015781 0.996039 ( 0.012546) 0.980258 ( 0.010608) 0.998563 0.981815 --->fabia-------beagle2--: 6.2e-15 0.025235 4.87e-21 0.023987 0.996039 ( 0.012546) 0.972052 ( 0.013741) 0.998563 0.972347 --->fabia-------plink----: 3.96e-18 0.902630 2.41e-183 0.902888 0.996039 ( 0.012546) 0.093151 ( 0.011300) 0.998563 0.095455 --->fabia-------germline1: 6.05e-11 0.002481 5.32e-01 0.000726 0.996039 ( 0.012546) 0.995313 ( 0.002683) 0.998563 0.995178 --->fabia-------germline2: 5.91e-11 0.002519 3.97e-01 0.001026 0.996039 ( 0.012546) 0.995013 ( 0.004099) 0.998563 0.995178 --->fabia-------dash-----: 6.54e-18 0.092793 3.59e-65 0.087806 0.996039 ( 0.012546) 0.908233 ( 0.012402) 0.998563 0.905080 --->beagle1-----beagle2--: 1.47e-10 0.009843 8.67e-12 0.008206 0.980258 ( 0.010608) 0.972052 ( 0.013741) 0.981815 0.972347 --->beagle1-----plink----: 3.96e-18 0.886072 2.56e-171 0.887107 0.980258 ( 0.010608) 0.093151 ( 0.011300) 0.981815 0.095455 --->beagle1-----germline1: 1.37e-16 -0.014552 7.05e-24 -0.015055 0.980258 ( 0.010608) 0.995313 ( 0.002683) 0.981815 0.995178 --->beagle1-----germline2: 1.06e-15 -0.014397 4.75e-22 -0.014755 0.980258 ( 0.010608) 0.995013 ( 0.004099) 0.981815 0.995178 --->beagle1-----dash-----: 3.96e-18 0.073657 1.11e-72 0.072025 0.980258 ( 0.010608) 0.908233 ( 0.012402) 0.981815 0.905080 --->beagle2-----plink----: 3.96e-18 0.877488 2.82e-163 0.878902 0.972052 ( 0.013741) 0.093151 ( 0.011300) 0.972347 0.095455 --->beagle2-----germline1: 2.75e-17 -0.022963 8.28e-30 -0.023260 0.972052 ( 0.013741) 0.995313 ( 0.002683) 0.972347 0.995178 --->beagle2-----germline2: 3.38e-17 -0.022704 7.48e-29 -0.022960 0.972052 ( 0.013741) 0.995013 ( 0.004099) 0.972347 0.995178 --->beagle2-----dash-----: 3.96e-18 0.064640 5.1e-66 0.063819 0.972052 ( 0.013741) 0.908233 ( 0.012402) 0.972347 0.905080 --->plink-------germline1: 3.96e-18 -0.900035 1.46e-195 -0.902162 0.093151 ( 0.011300) 0.995313 ( 0.002683) 0.095455 0.995178 --->plink-------germline2: 3.96e-18 -0.899989 2.79e-193 -0.901862 0.093151 ( 0.011300) 0.995013 ( 0.004099) 0.095455 0.995178 --->plink-------dash-----: 3.96e-18 -0.809434 2.31e-154 -0.815082 0.093151 ( 0.011300) 0.908233 ( 0.012402) 0.095455 0.905080 --->germline1---germline2: 1e+00 0.000000 3.2e-01 3e-04 0.995313 ( 0.002683) 0.995013 ( 0.004099) 0.995178 0.995178 --->germline1---dash-----: 2.46e-18 0.089919 1.1e-80 0.087080 0.995313 ( 0.002683) 0.908233 ( 0.012402) 0.995178 0.905080 --->germline2---dash-----: 2.48e-18 0.089935 8.48e-80 0.086780 0.995013 ( 0.004099) 0.908233 ( 0.012402) 0.995178 0.905080 ######FPRSnps###### --->fabia-------beagle1--: 1.39e-09 -0.001526 6.11e-01 -0.000738 0.002053 ( 0.012873) 0.002792 ( 0.005637) 0.000000 0.000135 --->fabia-------beagle2--: 1e+00 0.000000 1.58e-01 0.001837 0.002053 ( 0.012873) 0.000216 ( 0.000530) 0.000000 0.000000 --->fabia-------plink----: 7.05e-19 -0.999237 6.54e-187 -0.996441 0.002053 ( 0.012873) 0.998494 ( 0.002726) 0.000000 1.000000 --->fabia-------germline1: 1e+00 0.000000 1.21e-01 0.002015 0.002053 ( 0.012873) 3.86e-05 ( 0.000151) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 2.1e-01 0.001683 0.002053 ( 0.012873) 0.000370 ( 0.003317) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.002053 ( 0.012873) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 8.34e-07 0.007863 1.51e-05 0.002575 0.002792 ( 0.005637) 0.000216 ( 0.000530) 0.000135 0.000000 --->beagle1-----plink----: 3.67e-18 -0.997283 5.64e-221 -0.995703 0.002792 ( 0.005637) 0.998494 ( 0.002726) 0.000135 1.000000 --->beagle1-----germline1: 4.24e-12 0.001634 3.64e-06 0.002753 0.002792 ( 0.005637) 3.86e-05 ( 0.000151) 0.000135 0.000000 --->beagle1-----germline2: 4.68e-11 0.001518 4.4e-04 0.002421 0.002792 ( 0.005637) 0.000370 ( 0.003317) 0.000135 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.002792 ( 0.005637) 0.000000 ( 0.000000) 0.000135 0.000000 --->beagle2-----plink----: 2.44e-18 -0.998950 8.62e-256 -0.998278 0.000216 ( 0.000530) 0.998494 ( 0.002726) 0.000000 1.000000 --->beagle2-----germline1: 1e+00 0.000000 2.11e-03 0.000178 0.000216 ( 0.000530) 3.86e-05 ( 0.000151) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 6.49e-01 -0.000154 0.000216 ( 0.000530) 0.000370 ( 0.003317) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000216 ( 0.000530) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 1.01e-18 0.999235 9.86e-256 0.998456 0.998494 ( 0.002726) 3.86e-05 ( 0.000151) 1.000000 0.000000 --->plink-------germline2: 1.09e-18 0.999189 1.7e-237 0.998124 0.998494 ( 0.002726) 0.000370 ( 0.003317) 1.000000 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.998494 ( 0.002726) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 -0.000332 3.86e-05 ( 0.000151) 0.000370 ( 0.003317) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 3.86e-05 ( 0.000151) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000370 ( 0.003317) 0.000000 ( 0.000000) 0.000000 0.000000 ######FDRSnps###### --->fabia-------beagle1--: 1.39e-09 -0.016362 2.08e-01 -0.014700 0.015483 ( 0.094989) 0.030183 ( 0.059295) 0.000000 0.001647 --->fabia-------beagle2--: 1e+00 0.000000 1.84e-01 0.012794 0.015483 ( 0.094989) 0.002689 ( 0.006012) 0.000000 0.000000 --->fabia-------plink----: 3.96e-18 -0.904934 5.16e-101 -0.892639 0.015483 ( 0.094989) 0.908122 ( 0.012392) 0.000000 0.904924 --->fabia-------germline1: 1e+00 0.000000 1.16e-01 0.015081 0.015483 ( 0.094989) 0.000401 ( 0.001674) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 2.05e-01 0.012581 0.015483 ( 0.094989) 0.002901 ( 0.025015) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.015483 ( 0.094989) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1.57e-04 0.038989 1.23e-05 0.027494 0.030183 ( 0.059295) 0.002689 ( 0.006012) 0.001647 0.000000 --->beagle1-----plink----: 3.96e-18 -0.899306 5.1e-118 -0.877939 0.030183 ( 0.059295) 0.908122 ( 0.012392) 0.001647 0.904924 --->beagle1-----germline1: 2.09e-12 0.017342 2.01e-06 0.029781 0.030183 ( 0.059295) 0.000401 ( 0.001674) 0.001647 0.000000 --->beagle1-----germline2: 2.33e-11 0.016222 6.21e-05 0.027281 0.030183 ( 0.059295) 0.002901 ( 0.025015) 0.001647 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.030183 ( 0.059295) 0.000000 ( 0.000000) 0.001647 0.000000 --->beagle2-----plink----: 3.96e-18 -0.904420 3.67e-181 -0.905432 0.002689 ( 0.006012) 0.908122 ( 0.012392) 0.000000 0.904924 --->beagle2-----germline1: 1e+00 0.000000 5.11e-04 0.002288 0.002689 ( 0.006012) 0.000401 ( 0.001674) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 9.35e-01 -0.000212 0.002689 ( 0.006012) 0.002901 ( 0.025015) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.002689 ( 0.006012) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 3.96e-18 0.904912 1.08e-186 0.907720 0.908122 ( 0.012392) 0.000401 ( 0.001674) 0.904924 0.000000 --->plink-------germline2: 3.96e-18 0.904895 3.39e-151 0.905220 0.908122 ( 0.012392) 0.002901 ( 0.025015) 0.904924 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.908122 ( 0.012392) 0.000000 ( 0.000000) 0.904924 0.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 -0.002500 0.000401 ( 0.001674) 0.002901 ( 0.025015) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000401 ( 0.001674) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.002901 ( 0.025015) 0.000000 ( 0.000000) 0.000000 0.000000 ######specifitySnps###### --->fabia-------beagle1--: 1.39e-09 0.001536 6.11e-01 0.000738 0.997947 ( 0.012873) 0.997208 ( 0.005637) 1.000000 0.999865 --->fabia-------beagle2--: 1e+00 0.000000 1.58e-01 -0.001837 0.997947 ( 0.012873) 0.999784 ( 0.000530) 1.000000 1.000000 --->fabia-------plink----: 7.05e-19 0.999238 6.54e-187 0.996441 0.997947 ( 0.012873) 0.001506 ( 0.002726) 1.000000 0.000000 --->fabia-------germline1: 1e+00 0.000000 1.21e-01 -0.002015 0.997947 ( 0.012873) 0.999961 ( 0.000151) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 2.1e-01 -0.001683 0.997947 ( 0.012873) 0.999630 ( 0.003317) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.997947 ( 0.012873) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 8.34e-07 -0.007780 1.51e-05 -0.002575 0.997208 ( 0.005637) 0.999784 ( 0.000530) 0.999865 1.000000 --->beagle1-----plink----: 3.67e-18 0.997283 5.64e-221 0.995703 0.997208 ( 0.005637) 0.001506 ( 0.002726) 0.999865 0.000000 --->beagle1-----germline1: 4.15e-12 -0.001629 3.64e-06 -0.002753 0.997208 ( 0.005637) 0.999961 ( 0.000151) 0.999865 1.000000 --->beagle1-----germline2: 4.59e-11 -0.001498 4.4e-04 -0.002421 0.997208 ( 0.005637) 0.999630 ( 0.003317) 0.999865 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.997208 ( 0.005637) 1.000000 ( 0.000000) 0.999865 1.000000 --->beagle2-----plink----: 2.44e-18 0.998950 8.62e-256 0.998278 0.999784 ( 0.000530) 0.001506 ( 0.002726) 1.000000 0.000000 --->beagle2-----germline1: 1e+00 0.000000 2.11e-03 -0.000178 0.999784 ( 0.000530) 0.999961 ( 0.000151) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 6.49e-01 0.000154 0.999784 ( 0.000530) 0.999630 ( 0.003317) 1.000000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.999784 ( 0.000530) 1.000000 ( 0.000000) 1.000000 1.000000 --->plink-------germline1: 1.01e-18 -0.999235 9.86e-256 -0.998456 0.001506 ( 0.002726) 0.999961 ( 0.000151) 0.000000 1.000000 --->plink-------germline2: 1.09e-18 -0.999189 1.7e-237 -0.998124 0.001506 ( 0.002726) 0.999630 ( 0.003317) 0.000000 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.001506 ( 0.002726) 1.000000 ( 0.000000) 0.000000 1.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 0.000332 0.999961 ( 0.000151) 0.999630 ( 0.003317) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.999961 ( 0.000151) 1.000000 ( 0.000000) 1.000000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.999630 ( 0.003317) 1.000000 ( 0.000000) 1.000000 1.000000 ######sensitivitySnps###### --->fabia-------beagle1--: 1.06e-16 0.156811 7.43e-19 0.155098 0.969399 ( 0.100668) 0.814300 ( 0.094780) 0.985594 0.826734 --->fabia-------beagle2--: 7.67e-17 0.270412 4.06e-27 0.267525 0.969399 ( 0.100668) 0.701873 ( 0.140558) 0.985594 0.699860 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.969399 ( 0.100668) 1.000000 ( 0.000000) 0.985594 1.000000 --->fabia-------germline1: 7.09e-13 0.027606 6.58e-04 0.035487 0.969399 ( 0.100668) 0.933911 ( 0.135486) 0.985594 0.949042 --->fabia-------germline2: 7.09e-13 0.027606 6.58e-04 0.035487 0.969399 ( 0.100668) 0.933911 ( 0.135486) 0.985594 0.949042 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.969399 ( 0.100668) 0.000000 ( 0.000000) 0.985594 0.000000 --->beagle1-----beagle2--: 1.17e-14 0.130035 1.88e-19 0.112427 0.814300 ( 0.094780) 0.701873 ( 0.140558) 0.826734 0.699860 --->beagle1-----plink----: 1e+00 0.000000 1e+00 0.000000 0.814300 ( 0.094780) 1.000000 ( 0.000000) 0.826734 1.000000 --->beagle1-----germline1: 2.88e-15 -0.129317 2.9e-10 -0.119611 0.814300 ( 0.094780) 0.933911 ( 0.135486) 0.826734 0.949042 --->beagle1-----germline2: 2.88e-15 -0.129317 2.9e-10 -0.119611 0.814300 ( 0.094780) 0.933911 ( 0.135486) 0.826734 0.949042 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.814300 ( 0.094780) 0.000000 ( 0.000000) 0.826734 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.701873 ( 0.140558) 1.000000 ( 0.000000) 0.699860 1.000000 --->beagle2-----germline1: 1.4e-15 -0.243461 5.85e-19 -0.232038 0.701873 ( 0.140558) 0.933911 ( 0.135486) 0.699860 0.949042 --->beagle2-----germline2: 1.4e-15 -0.243461 5.85e-19 -0.232038 0.701873 ( 0.140558) 0.933911 ( 0.135486) 0.699860 0.949042 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.701873 ( 0.140558) 0.000000 ( 0.000000) 0.699860 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.933911 ( 0.135486) 1.000000 0.949042 --->plink-------germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.933911 ( 0.135486) 1.000000 0.949042 --->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 0.933911 ( 0.135486) 0.933911 ( 0.135486) 0.949042 0.949042 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.933911 ( 0.135486) 0.000000 ( 0.000000) 0.949042 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.933911 ( 0.135486) 0.000000 ( 0.000000) 0.949042 0.000000 ######trueNSnps###### --->fabia-------beagle1--: 1.39e-09 279 6.43e-01 125 181263 ( 2787) 181139 ( 2625) 181012 180881 --->fabia-------beagle2--: 2.86e-05 60.5 1.55e-01 -344 181263 ( 2787) 181607 ( 2491) 181012 180984 --->fabia-------plink----: 3.96e-18 180874 2.28e-183 180986 181263 ( 2787) 277 ( 509) 181012 0 --->fabia-------germline1: 1e+00 0 1.19e-01 -376 181263 ( 2787) 181640 ( 2479) 181012 181012 --->fabia-------germline2: 1e+00 0 2.05e-01 -316 181263 ( 2787) 181580 ( 2569) 181012 181012 --->fabia-------dash-----: 1e+00 0 1.12e-01 -383 181263 ( 2787) 181647 ( 2480) 181012 181016 --->beagle1-----beagle2--: 8.34e-07 -1421 1.54e-05 -469 181139 ( 2625) 181607 ( 2491) 180881 180984 --->beagle1-----plink----: 3.96e-18 180674 8.95e-188 180862 181139 ( 2625) 277 ( 509) 180881 0 --->beagle1-----germline1: 4.15e-12 -303 3.73e-06 -501 181139 ( 2625) 181640 ( 2479) 180881 181012 --->beagle1-----germline2: 4.59e-11 -271 4.32e-04 -441 181139 ( 2625) 181580 ( 2569) 180881 181012 --->beagle1-----dash-----: 1.14e-12 -331 3.1e-06 -508 181139 ( 2625) 181647 ( 2480) 180881 181016 --->beagle2-----plink----: 3.96e-18 180864 2.12e-190 181331 181607 ( 2491) 277 ( 509) 180984 0 --->beagle2-----germline1: 1.06e-04 -47.4 2.14e-03 -32.1 181607 ( 2491) 181640 ( 2479) 180984 181012 --->beagle2-----germline2: 4.37e-04 -41.5 6.49e-01 27.9 181607 ( 2491) 181580 ( 2569) 180984 181012 --->beagle2-----dash-----: 3.7e-08 -71.5 9.06e-05 -39.1 181607 ( 2491) 181647 ( 2480) 180984 181016 --->plink-------germline1: 3.96e-18 -180902 1.31e-190 -181363 277 ( 509) 181640 ( 2479) 0 181012 --->plink-------germline2: 3.96e-18 -180895 6.83e-189 -181303 277 ( 509) 181580 ( 2569) 0 181012 --->plink-------dash-----: 3.96e-18 -180907 1.39e-190 -181370 277 ( 509) 181647 ( 2480) 0 181016 --->germline1---germline2: 1e+00 0 3.2e-01 60 181640 ( 2479) 181580 ( 2569) 181012 181012 --->germline1---dash-----: 1e+00 0 1.28e-02 -7.03 181640 ( 2479) 181647 ( 2480) 181012 181016 --->germline2---dash-----: 1e+00 0 2.67e-01 -67 181580 ( 2569) 181647 ( 2480) 181012 181016 ######falsePSnps###### --->fabia-------beagle1--: 1.39e-09 -279 6.43e-01 -125 383 ( 2392) 508 ( 1027) 0 24.5 --->fabia-------beagle2--: 1e+00 0.000000 1.55e-01 344.220000 383.360000 (2392.460107) 39.140000 (95.884718) 0.000000 0.000000 --->fabia-------plink----: 3.96e-18 -180874 2.28e-183 -180986 383 ( 2392) 181370 ( 2260) 0 180909 --->fabia-------germline1: 1e+00 0.000000 1.19e-01 376.330000 383.360000 (2392.460107) 7.030000 (27.712614) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 2.05e-01 316.330000 383.360000 (2392.460107) 67.030000 (599.929886) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 383.360000 (2392.460107) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 8.34e-07 1421 1.54e-05 469 508 ( 1027) 39.1 ( 95.9) 24.5 0 --->beagle1-----plink----: 3.96e-18 -180674 8.95e-188 -180862 508 ( 1027) 181370 ( 2260) 24.5 180909 --->beagle1-----germline1: 4.15e-12 303 3.73e-06 501 508 ( 1027) 7.03 ( 27.7) 24.5 0 --->beagle1-----germline2: 4.59e-11 271 4.32e-04 441 508 ( 1027) 67 ( 600) 24.5 0 --->beagle1-----dash-----: 1e+00 0 1e+00 0 508 ( 1027) 0 ( 0) 24.5 0 --->beagle2-----plink----: 3.96e-18 -180865 2.12e-190 -181331 39.1 ( 95.9) 181370 ( 2260) 0 180909 --->beagle2-----germline1: 1e+00 0.000000 2.14e-03 32.110000 39.140000 (95.884718) 7.030000 (27.712614) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 6.49e-01 -27.890000 39.140000 (95.884718) 67.030000 (599.929886) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 39.140000 (95.884718) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 3.96e-18 180902 1.31e-190 181363 181370 ( 2260) 7.03 ( 27.7) 180909 0 --->plink-------germline2: 3.96e-18 180895 6.83e-189 181303 181370 ( 2260) 67 ( 600) 180909 0 --->plink-------dash-----: 1e+00 0 1e+00 0 181370 ( 2260) 0 ( 0) 180909 0 --->germline1---germline2: 1e+00 0.000000 3.2e-01 -60.000000 7.030000 (27.712614) 67.030000 (599.929886) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 7.030000 (27.712614) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 67.030000 (599.929886) 0.000000 ( 0.000000) 0.000000 0.000000 ######falseNSnps###### --->fabia-------beagle1--: 1.77e-17 -2938 7.62e-28 -3032 409 ( 476) 3441 ( 1870) 273 3186 --->fabia-------beagle2--: 6.41e-18 -5052 1.48e-33 -5142 409 ( 476) 5550 ( 2771) 273 5530 --->fabia-------plink----: 1e+00 0 1e+00 0 409 ( 476) 0 ( 0) 273 0 --->fabia-------germline1: 3.54e-13 -517 2.88e-13 -522 409 ( 476) 930 ( 545) 273 964 --->fabia-------germline2: 3.54e-13 -517 2.88e-13 -522 409 ( 476) 930 ( 545) 273 964 --->fabia-------dash-----: 5.78e-18 -18558 1.41e-84 -17945 409 ( 476) 18353 ( 2480) 273 18984 --->beagle1-----beagle2--: 1.17e-14 -2457 2.15e-19 -2110 3441 ( 1870) 5550 ( 2771) 3186 5530 --->beagle1-----plink----: 1e+00 0 1e+00 0 3441 ( 1870) 0 ( 0) 3186 0 --->beagle1-----germline1: 4.95e-16 2428 2.4e-22 2510 3441 ( 1870) 930 ( 545) 3186 964 --->beagle1-----germline2: 4.95e-16 2428 2.4e-22 2510 3441 ( 1870) 930 ( 545) 3186 964 --->beagle1-----dash-----: 3.96e-18 -15229 7.61e-78 -14913 3441 ( 1870) 18353 ( 2480) 3186 18984 --->beagle2-----plink----: 1e+00 0 1e+00 0 5550 ( 2771) 0 ( 0) 5530 0 --->beagle2-----germline1: 3.29e-17 4569 2.52e-29 4620 5550 ( 2771) 930 ( 545) 5530 964 --->beagle2-----germline2: 3.29e-17 4569 2.52e-29 4620 5550 ( 2771) 930 ( 545) 5530 964 --->beagle2-----dash-----: 3.96e-18 -12961 9.3e-66 -12803 5550 ( 2771) 18353 ( 2480) 5530 18984 --->plink-------germline1: 1e+00 0 1e+00 0 0 ( 0) 930 ( 545) 0 964 --->plink-------germline2: 1e+00 0 1e+00 0 0 ( 0) 930 ( 545) 0 964 --->plink-------dash-----: 1e+00 0 1e+00 0 0 ( 0) 18353 ( 2480) 0 18984 --->germline1---germline2: 1e+00 0 1e+00 0 930 ( 545) 930 ( 545) 964 964 --->germline1---dash-----: 4.63e-19 -18000 1.07e-80 -17423 930 ( 545) 18353 ( 2480) 964 18984 --->germline2---dash-----: 4.63e-19 -18000 1.07e-80 -17423 930 ( 545) 18353 ( 2480) 964 18984 ######truePSnps###### --->fabia-------beagle1--: 1.77e-17 2938 7.62e-28 3032 17945 ( 2660) 14913 ( 2595) 18620 15263 --->fabia-------beagle2--: 6.41e-18 5050 1.48e-33 5142 17945 ( 2660) 12803 ( 2985) 18620 13049 --->fabia-------plink----: 5.78e-18 -334 1.3e-13 -409 17945 ( 2660) 18353 ( 2480) 18620 18984 --->fabia-------germline1: 3.54e-13 517 2.88e-13 522 17945 ( 2660) 17423 ( 2832) 18620 18000 --->fabia-------germline2: 3.54e-13 517 2.88e-13 522 17945 ( 2660) 17423 ( 2832) 18620 18000 --->fabia-------dash-----: 1e+00 0 1e+00 0 17945 ( 2660) 0 ( 0) 18620 0 --->beagle1-----beagle2--: 1.17e-14 2457 2.15e-19 2110 14913 ( 2595) 12803 ( 2985) 15263 13049 --->beagle1-----plink----: 3.96e-18 -3301 1.02e-33 -3441 14913 ( 2595) 18353 ( 2480) 15263 18984 --->beagle1-----germline1: 4.95e-16 -2429 2.4e-22 -2510 14913 ( 2595) 17423 ( 2832) 15263 18000 --->beagle1-----germline2: 4.95e-16 -2429 2.4e-22 -2510 14913 ( 2595) 17423 ( 2832) 15263 18000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 14913 ( 2595) 0 ( 0) 15263 0 --->beagle2-----plink----: 3.96e-18 -5440 1.34e-36 -5550 12803 ( 2985) 18353 ( 2480) 13049 18984 --->beagle2-----germline1: 3.29e-17 -4568 2.52e-29 -4620 12803 ( 2985) 17423 ( 2832) 13049 18000 --->beagle2-----germline2: 3.29e-17 -4568 2.52e-29 -4620 12803 ( 2985) 17423 ( 2832) 13049 18000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 12803 ( 2985) 0 ( 0) 13049 0 --->plink-------germline1: 8.46e-18 953 3.02e-31 930 18353 ( 2480) 17423 ( 2832) 18984 18000 --->plink-------germline2: 8.46e-18 953 3.02e-31 930 18353 ( 2480) 17423 ( 2832) 18984 18000 --->plink-------dash-----: 1e+00 0 1e+00 0 18353 ( 2480) 0 ( 0) 18984 0 --->germline1---germline2: 1e+00 0 1e+00 0 17423 ( 2832) 17423 ( 2832) 18000 18000 --->germline1---dash-----: 1e+00 0 1e+00 0 17423 ( 2832) 0 ( 0) 18000 0 --->germline2---dash-----: 1e+00 0 1e+00 0 17423 ( 2832) 0 ( 0) 18000 0 ######MatthewsSample###### --->fabia-------beagle1--: 1e+00 0.000000 7.09e-04 0.059997 0.990000 ( 0.100000) 0.930003 ( 0.134311) 1.000000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.100000) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------plink----: 4.06e-18 0.951576 1.58e-100 0.942419 0.990000 ( 0.100000) 0.047581 ( 0.006467) 1.000000 0.048357 --->fabia-------germline1: 1e+00 0.000000 3.2e-01 0.010000 0.990000 ( 0.100000) 0.980000 ( 0.140705) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 2.16e-01 0.012936 0.990000 ( 0.100000) 0.977064 ( 0.143323) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.100000) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.930003 ( 0.134311) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----plink----: 3.95e-18 0.949896 2.51e-83 0.882422 0.930003 ( 0.134311) 0.047581 ( 0.006467) 1.000000 0.048357 --->beagle1-----germline1: 1e+00 0.000000 1.49e-02 -0.049997 0.930003 ( 0.134311) 0.980000 ( 0.140705) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 2.35e-02 -0.047060 0.930003 ( 0.134311) 0.977064 ( 0.143323) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.930003 ( 0.134311) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.047581 ( 0.006467) 1.000000 0.048357 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.980000 ( 0.140705) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.977064 ( 0.143323) 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: 4.32e-18 -0.951496 1.23e-85 -0.932419 0.047581 ( 0.006467) 0.980000 ( 0.140705) 0.048357 1.000000 --->plink-------germline2: 4.32e-18 -0.951420 1.14e-84 -0.929483 0.047581 ( 0.006467) 0.977064 ( 0.143323) 0.048357 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.047581 ( 0.006467) 0.000000 ( 0.000000) 0.048357 0.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 0.002936 0.980000 ( 0.140705) 0.977064 ( 0.143323) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.980000 ( 0.140705) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.977064 ( 0.143323) 0.000000 ( 0.000000) 1.000000 0.000000 ######F1Sample###### --->fabia-------beagle1--: 1e+00 0.000000 3.21e-04 0.070238 0.990000 ( 0.100000) 0.919762 ( 0.154476) 1.000000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.100000) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------plink----: 4.06e-18 0.991330 1.26e-100 0.981425 0.990000 ( 0.100000) 0.008575 ( 0.000748) 1.000000 0.008630 --->fabia-------germline1: 1e+00 0.000000 3.2e-01 0.010000 0.990000 ( 0.100000) 0.980000 ( 0.140705) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 2.08e-01 0.013333 0.990000 ( 0.100000) 0.976667 ( 0.144133) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.100000) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.919762 ( 0.154476) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----plink----: 3.95e-18 0.991028 6.15e-79 0.911187 0.919762 ( 0.154476) 0.008575 ( 0.000748) 1.000000 0.008630 --->beagle1-----germline1: 1e+00 0.000000 6.48e-03 -0.060238 0.919762 ( 0.154476) 0.980000 ( 0.140705) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1.12e-02 -0.056905 0.919762 ( 0.154476) 0.976667 ( 0.144133) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.919762 ( 0.154476) 0.000000 ( 0.000000) 1.000000 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.008575 ( 0.000748) 1.000000 0.008630 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.980000 ( 0.140705) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.976667 ( 0.144133) 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: 4.32e-18 -0.991337 1.02e-85 -0.971425 0.008575 ( 0.000748) 0.980000 ( 0.140705) 0.008630 1.000000 --->plink-------germline2: 4.32e-18 -0.991321 1.49e-84 -0.968092 0.008575 ( 0.000748) 0.976667 ( 0.144133) 0.008630 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.008575 ( 0.000748) 0.000000 ( 0.000000) 0.008630 0.000000 --->germline1---germline2: 1e+00 0.000000 3.2e-01 0.003333 0.980000 ( 0.140705) 0.976667 ( 0.144133) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.980000 ( 0.140705) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.976667 ( 0.144133) 0.000000 ( 0.000000) 1.000000 0.000000 ######accuracySample###### --->fabia-------beagle1--: 1e+00 0.000000 4.4e-06 0.000510 0.999990 ( 1e-04) 0.999480 ( 0.001039) 1.000000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.999990 ( 1e-04) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------plink----: 3.94e-18 0.458990 2.22e-125 0.459000 0.999990 ( 1e-04) 0.540990 ( 0.026092) 1.000000 0.542500 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.999990 ( 1e-04) 0.999960 ( 0.000281) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.999990 ( 1e-04) 0.999940 ( 0.000343) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.999990 ( 1e-04) 0.998000 ( 0.000000) 1.000000 0.998000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.999480 ( 0.001039) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----plink----: 3.94e-18 0.458014 1.84e-125 0.458490 0.999480 ( 0.001039) 0.540990 ( 0.026092) 1.000000 0.542500 --->beagle1-----germline1: 1e+00 0.000000 2.97e-05 -0.000480 0.999480 ( 0.001039) 0.999960 ( 0.000281) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 8.59e-05 -0.000460 0.999480 ( 0.001039) 0.999940 ( 0.000343) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.999480 ( 0.001039) 0.998000 ( 0.000000) 1.000000 0.998000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.540990 ( 0.026092) 1.000000 0.542500 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999960 ( 0.000281) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999940 ( 0.000343) 1.000000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.998000 ( 0.000000) 1.000000 0.998000 --->plink-------germline1: 3.94e-18 -0.458999 2.55e-125 -0.458970 0.540990 ( 0.026092) 0.999960 ( 0.000281) 0.542500 1.000000 --->plink-------germline2: 3.94e-18 -0.458514 2.39e-125 -0.458950 0.540990 ( 0.026092) 0.999940 ( 0.000343) 0.542500 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.540990 ( 0.026092) 0.998000 ( 0.000000) 0.542500 0.998000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.999960 ( 0.000281) 0.999940 ( 0.000343) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.999960 ( 0.000281) 0.998000 ( 0.000000) 1.000000 0.998000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.999940 ( 0.000343) 0.998000 ( 0.000000) 1.000000 0.998000 ######FPRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000521 ( 0.001042) 0.000000 0.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.459910 ( 0.026165) 0.000000 0.458417 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 2e-05 ( 2e-04) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000521 ( 0.001042) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----plink----: 3.95e-18 -0.458941 2e-125 -0.459389 0.000521 ( 0.001042) 0.459910 ( 0.026165) 0.000000 0.458417 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000521 ( 0.001042) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 9.11e-06 0.000501 0.000521 ( 0.001042) 2e-05 ( 2e-04) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000521 ( 0.001042) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.459910 ( 0.026165) 0.000000 0.458417 --->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) 2e-05 ( 2e-04) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.459910 ( 0.026165) 0.000000 ( 0.000000) 0.458417 0.000000 --->plink-------germline2: 3.94e-18 0.459455 2.19e-125 0.459890 0.459910 ( 0.026165) 2e-05 ( 2e-04) 0.458417 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.459910 ( 0.026165) 0.000000 ( 0.000000) 0.458417 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 2e-05 ( 2e-04) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 2e-05 ( 2e-04) 0.000000 ( 0.000000) 0.000000 0.000000 ######FDRSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.117000 ( 0.223255) 0.000000 0.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.995694 ( 0.000376) 0.000000 0.995666 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.005000 ( 0.050000) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.117000 ( 0.223255) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----plink----: 3.95e-18 -0.995504 2.89e-62 -0.878694 0.117000 ( 0.223255) 0.995694 ( 0.000376) 0.000000 0.995666 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.117000 ( 0.223255) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 4.76e-06 0.112000 0.117000 ( 0.223255) 0.005000 ( 0.050000) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.117000 ( 0.223255) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.995694 ( 0.000376) 0.000000 0.995666 --->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) 0.005000 ( 0.050000) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.995694 ( 0.000376) 0.000000 ( 0.000000) 0.995666 0.000000 --->plink-------germline2: 3.94e-18 0.995660 1.65e-130 0.990694 0.995694 ( 0.000376) 0.005000 ( 0.050000) 0.995666 0.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.995694 ( 0.000376) 0.000000 ( 0.000000) 0.995666 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.005000 ( 0.050000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.005000 ( 0.050000) 0.000000 ( 0.000000) 0.000000 0.000000 ######specifitySample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999479 ( 0.001042) 1.000000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.540090 ( 0.026165) 1.000000 0.541583 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999980 ( 2e-04) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.999479 ( 0.001042) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----plink----: 3.94e-18 0.458962 2e-125 0.459389 0.999479 ( 0.001042) 0.540090 ( 0.026165) 1.000000 0.541583 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.999479 ( 0.001042) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 9.11e-06 -0.000501 0.999479 ( 0.001042) 0.999980 ( 2e-04) 1.000000 1.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.999479 ( 0.001042) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.540090 ( 0.026165) 1.000000 0.541583 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999980 ( 2e-04) 1.000000 1.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->plink-------germline1: 1e+00 0.000000 1e+00 0.000000 0.540090 ( 0.026165) 1.000000 ( 0.000000) 0.541583 1.000000 --->plink-------germline2: 3.94e-18 -0.459420 2.19e-125 -0.459890 0.540090 ( 0.026165) 0.999980 ( 2e-04) 0.541583 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.540090 ( 0.026165) 1.000000 ( 0.000000) 0.541583 1.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.999980 ( 2e-04) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 1.000000 ( 0.000000) 1.000000 1.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.999980 ( 2e-04) 1.000000 ( 0.000000) 1.000000 1.000000 ######sensitivitySample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.100000) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.100000) 1.000000 ( 0.000000) 1.000000 1.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.100000) 0.990000 ( 0.070353) 1.000000 1.000000 --->fabia-------germline1: 1e+00 0.000000 3.2e-01 0.010000 0.990000 ( 0.100000) 0.980000 ( 0.140705) 1.000000 1.000000 --->fabia-------germline2: 1e+00 0.000000 3.2e-01 0.010000 0.990000 ( 0.100000) 0.980000 ( 0.140705) 1.000000 1.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.100000) 0.000000 ( 0.000000) 1.000000 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) 0.990000 ( 0.070353) 1.000000 1.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.980000 ( 0.140705) 1.000000 1.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.980000 ( 0.140705) 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) 0.990000 ( 0.070353) 1.000000 1.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.980000 ( 0.140705) 1.000000 1.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 1.000000 ( 0.000000) 0.980000 ( 0.140705) 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 1.58e-01 0.010000 0.990000 ( 0.070353) 0.980000 ( 0.140705) 1.000000 1.000000 --->plink-------germline2: 1e+00 0.000000 1.58e-01 0.010000 0.990000 ( 0.070353) 0.980000 ( 0.140705) 1.000000 1.000000 --->plink-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.990000 ( 0.070353) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.980000 ( 0.140705) 0.980000 ( 0.140705) 1.000000 1.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.980000 ( 0.140705) 0.000000 ( 0.000000) 1.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.980000 ( 0.140705) 0.000000 ( 0.000000) 1.000000 0.000000 ######trueNSample###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 1998 ( 0) 997 ( 1.04) 1998 998 --->fabia-------beagle2--: 1e+00 0 1e+00 0 1998 ( 0) 998 ( 0) 1998 998 --->fabia-------plink----: 1e+00 0 1e+00 0 1998 ( 0) 539 ( 26.1) 1998 540 --->fabia-------germline1: 1e+00 0 1e+00 0 1998 ( 0) 998 ( 0) 1998 998 --->fabia-------germline2: 1e+00 0 1e+00 0 1998 ( 0) 998 ( 0.2) 1998 998 --->fabia-------dash-----: 1e+00 0 1e+00 0 1998 ( 0) 998 ( 0) 1998 998 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 997 ( 1.04) 998 ( 0) 998 998 --->beagle1-----plink----: 3.94e-18 458 2e-125 458 997 ( 1.04) 539 ( 26.1) 998 540 --->beagle1-----germline1: 1e+00 0 1e+00 0 997 ( 1.04) 998 ( 0) 998 998 --->beagle1-----germline2: 1e+00 0 9.11e-06 -0.5 997 ( 1.04) 998 ( 0.2) 998 998 --->beagle1-----dash-----: 1e+00 0 1e+00 0 997 ( 1.04) 998 ( 0) 998 998 --->beagle2-----plink----: 1e+00 0 1e+00 0 998 ( 0) 539 ( 26.1) 998 540 --->beagle2-----germline1: 1e+00 0 1e+00 0 998 ( 0) 998 ( 0) 998 998 --->beagle2-----germline2: 1e+00 0 1e+00 0 998 ( 0) 998 ( 0.2) 998 998 --->beagle2-----dash-----: 1e+00 0 1e+00 0 998 ( 0) 998 ( 0) 998 998 --->plink-------germline1: 1e+00 0 1e+00 0 539 ( 26.1) 998 ( 0) 540 998 --->plink-------germline2: 3.94e-18 -459 2.19e-125 -459 539 ( 26.1) 998 ( 0.2) 540 998 --->plink-------dash-----: 1e+00 0 1e+00 0 539 ( 26.1) 998 ( 0) 540 998 --->germline1---germline2: 1e+00 0 1e+00 0 998 ( 0) 998 ( 0.2) 998 998 --->germline1---dash-----: 1e+00 0 1e+00 0 998 ( 0) 998 ( 0) 998 998 --->germline2---dash-----: 1e+00 0 1e+00 0 998 ( 0.2) 998 ( 0) 998 998 ######falsePSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.520000 ( 1.039425) 0.000000 0.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0 1e+00 0 0 ( 0) 459 ( 26.1) 0 458 --->fabia-------germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.020000 ( 0.200000) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----beagle2--: 1e+00 0.000000 1e+00 0.000000 0.520000 ( 1.039425) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----plink----: 3.94e-18 -458 2e-125 -458 0.52 ( 1.04) 459 ( 26.1) 0 458 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.520000 ( 1.039425) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 9.11e-06 0.500000 0.520000 ( 1.039425) 0.020000 ( 0.200000) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.520000 ( 1.039425) 0.000000 ( 0.000000) 0.000000 0.000000 --->beagle2-----plink----: 1e+00 0 1e+00 0 0 ( 0) 459 ( 26.1) 0 458 --->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) 0.020000 ( 0.200000) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->plink-------germline1: 1e+00 0 1e+00 0 459 ( 26.1) 0 ( 0) 458 0 --->plink-------germline2: 3.94e-18 459 2.19e-125 459 459 ( 26.1) 0.02 ( 0.2) 458 0 --->plink-------dash-----: 1e+00 0 1e+00 0 459 ( 26.1) 0 ( 0) 458 0 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.020000 ( 0.200000) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.000000 ( 0.000000) 0.000000 0.000000 --->germline2---dash-----: 1e+00 0.000000 1e+00 0.000000 0.020000 ( 0.200000) 0.000000 ( 0.000000) 0.000000 0.000000 ######falseNSample###### --->fabia-------beagle1--: 1e+00 0.000000 1e+00 0.000000 0.020000 ( 0.200000) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------beagle2--: 1e+00 0.000000 1e+00 0.000000 0.020000 ( 0.200000) 0.000000 ( 0.000000) 0.000000 0.000000 --->fabia-------plink----: 1e+00 0.000000 1e+00 0.000000 0.020000 ( 0.200000) 0.020000 ( 0.140705) 0.000000 0.000000 --->fabia-------germline1: 1e+00 0.000000 3.2e-01 -0.020000 0.020000 ( 0.200000) 0.040000 ( 0.281411) 0.000000 0.000000 --->fabia-------germline2: 1e+00 0.000000 3.2e-01 -0.020000 0.020000 ( 0.200000) 0.040000 ( 0.281411) 0.000000 0.000000 --->fabia-------dash-----: 1e+00 0 1e+00 0 0.02 ( 0.2) 2 ( 0) 0 2 --->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) 0.020000 ( 0.140705) 0.000000 0.000000 --->beagle1-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.040000 ( 0.281411) 0.000000 0.000000 --->beagle1-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.040000 ( 0.281411) 0.000000 0.000000 --->beagle1-----dash-----: 1e+00 0 1e+00 0 0 ( 0) 2 ( 0) 0 2 --->beagle2-----plink----: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.020000 ( 0.140705) 0.000000 0.000000 --->beagle2-----germline1: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.040000 ( 0.281411) 0.000000 0.000000 --->beagle2-----germline2: 1e+00 0.000000 1e+00 0.000000 0.000000 ( 0.000000) 0.040000 ( 0.281411) 0.000000 0.000000 --->beagle2-----dash-----: 1e+00 0 1e+00 0 0 ( 0) 2 ( 0) 0 2 --->plink-------germline1: 1e+00 0.000000 1.58e-01 -0.020000 0.020000 ( 0.140705) 0.040000 ( 0.281411) 0.000000 0.000000 --->plink-------germline2: 1e+00 0.000000 1.58e-01 -0.020000 0.020000 ( 0.140705) 0.040000 ( 0.281411) 0.000000 0.000000 --->plink-------dash-----: 1e+00 0 1e+00 0 0.02 ( 0.141) 2 ( 0) 0 2 --->germline1---germline2: 1e+00 0.000000 1e+00 0.000000 0.040000 ( 0.281411) 0.040000 ( 0.281411) 0.000000 0.000000 --->germline1---dash-----: 1e+00 0 1e+00 0 0.04 ( 0.281) 2 ( 0) 0 2 --->germline2---dash-----: 1e+00 0 1e+00 0 0.04 ( 0.281) 2 ( 0) 0 2 ######truePSample###### --->fabia-------beagle1--: 1e+00 0 1e+00 0 1.98 ( 0.2) 2 ( 0) 2 2 --->fabia-------beagle2--: 1e+00 0 1e+00 0 1.98 ( 0.2) 2 ( 0) 2 2 --->fabia-------plink----: 1e+00 0 1e+00 0 1.98 ( 0.2) 1.98 ( 0.141) 2 2 --->fabia-------germline1: 1e+00 0 3.2e-01 0.02 1.98 ( 0.2) 1.96 ( 0.281) 2 2 --->fabia-------germline2: 1e+00 0 3.2e-01 0.02 1.98 ( 0.2) 1.96 ( 0.281) 2 2 --->fabia-------dash-----: 1e+00 0 1e+00 0 1.98 ( 0.2) 0 ( 0) 2 0 --->beagle1-----beagle2--: 1e+00 0 1e+00 0 2 ( 0) 2 ( 0) 2 2 --->beagle1-----plink----: 1e+00 0 1e+00 0 2 ( 0) 1.98 ( 0.141) 2 2 --->beagle1-----germline1: 1e+00 0 1e+00 0 2 ( 0) 1.96 ( 0.281) 2 2 --->beagle1-----germline2: 1e+00 0 1e+00 0 2 ( 0) 1.96 ( 0.281) 2 2 --->beagle1-----dash-----: 1e+00 0 1e+00 0 2 ( 0) 0 ( 0) 2 0 --->beagle2-----plink----: 1e+00 0 1e+00 0 2 ( 0) 1.98 ( 0.141) 2 2 --->beagle2-----germline1: 1e+00 0 1e+00 0 2 ( 0) 1.96 ( 0.281) 2 2 --->beagle2-----germline2: 1e+00 0 1e+00 0 2 ( 0) 1.96 ( 0.281) 2 2 --->beagle2-----dash-----: 1e+00 0 1e+00 0 2 ( 0) 0 ( 0) 2 0 --->plink-------germline1: 1e+00 0 1.58e-01 0.02 1.98 ( 0.141) 1.96 ( 0.281) 2 2 --->plink-------germline2: 1e+00 0 1.58e-01 0.02 1.98 ( 0.141) 1.96 ( 0.281) 2 2 --->plink-------dash-----: 1e+00 0 1e+00 0 1.98 ( 0.141) 0 ( 0) 2 0 --->germline1---germline2: 1e+00 0 1e+00 0 1.96 ( 0.281) 1.96 ( 0.281) 2 2 --->germline1---dash-----: 1e+00 0 1e+00 0 1.96 ( 0.281) 0 ( 0) 2 0 --->germline2---dash-----: 1e+00 0 1e+00 0 1.96 ( 0.281) 0 ( 0) 2 0