PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19801-19850 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7892 | 99.7825 | 99.7959 | 36.4791 | 7339 | 16 | 7335 | 15 | 5 | 33.3333 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8159 | 99.9133 | 99.7187 | 39.4602 | 4612 | 4 | 4608 | 13 | 3 | 23.0769 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 100.0000 | 0 | 1 | 0 | 0 | 0 | ||||
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7622 | 99.5982 | 99.9267 | 30.6657 | 2727 | 11 | 2727 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 100.0000 | 100.0000 | 100.0000 | 95.8140 | 9 | 0 | 9 | 0 | 0 | ||
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 100.0000 | 100.0000 | 100.0000 | 94.8529 | 7 | 0 | 7 | 0 | 0 | ||
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 100.0000 | 100.0000 | 100.0000 | 97.4684 | 2 | 0 | 2 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l100_m0_e0 | * | 82.8691 | 71.9040 | 97.7802 | 83.9171 | 23614 | 9227 | 23610 | 536 | 48 | 8.9552 | |
| ckim-gatk | SNP | * | map_l100_m0_e0 | het | 86.1308 | 77.5383 | 96.8651 | 86.4108 | 16442 | 4763 | 16438 | 532 | 46 | 8.6466 | |
| ckim-gatk | SNP | * | map_l100_m0_e0 | hetalt | 72.0000 | 56.2500 | 100.0000 | 92.1053 | 9 | 7 | 9 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l100_m0_e0 | homalt | 76.2549 | 61.6437 | 99.9442 | 71.4939 | 7163 | 4457 | 7163 | 4 | 2 | 50.0000 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | * | 89.2398 | 81.7300 | 98.2693 | 78.3708 | 59175 | 13228 | 59164 | 1042 | 84 | 8.0614 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | het | 92.2588 | 87.5769 | 97.4696 | 81.5171 | 39724 | 5635 | 39713 | 1031 | 76 | 7.3715 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | hetalt | 78.2609 | 65.8537 | 96.4286 | 89.0625 | 27 | 14 | 27 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | homalt | 83.6574 | 71.9327 | 99.9485 | 66.2938 | 19424 | 7579 | 19424 | 10 | 7 | 70.0000 | |
| ckim-gatk | SNP | * | map_l100_m2_e0 | * | 89.4294 | 82.0710 | 98.2373 | 79.5869 | 60703 | 13261 | 60692 | 1089 | 86 | 7.8972 | |
| ckim-gatk | SNP | * | map_l100_m2_e0 | het | 92.3834 | 87.8381 | 97.4248 | 82.5144 | 40756 | 5643 | 40745 | 1077 | 78 | 7.2423 | |
| ckim-gatk | SNP | * | map_l100_m2_e0 | hetalt | 78.8732 | 66.6667 | 96.5517 | 90.1024 | 28 | 14 | 28 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | * | map_l100_m2_e0 | homalt | 83.9525 | 72.3722 | 99.9448 | 68.4557 | 19919 | 7604 | 19919 | 11 | 7 | 63.6364 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | * | 89.5170 | 82.2096 | 98.2503 | 79.5686 | 61441 | 13296 | 61430 | 1094 | 86 | 7.8611 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | het | 92.4550 | 87.9526 | 97.4432 | 82.5075 | 41248 | 5650 | 41237 | 1082 | 78 | 7.2089 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | hetalt | 79.4521 | 67.4419 | 96.6667 | 89.7959 | 29 | 14 | 29 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | homalt | 84.0675 | 72.5428 | 99.9455 | 68.3772 | 20164 | 7632 | 20164 | 11 | 7 | 63.6364 | |
| ckim-gatk | SNP | * | map_l125_m0_e0 | * | 76.5382 | 63.0075 | 97.4697 | 89.2235 | 12214 | 7171 | 12211 | 317 | 31 | 9.7792 | |
| ckim-gatk | SNP | * | map_l125_m0_e0 | het | 79.9330 | 68.2249 | 96.4920 | 90.8886 | 8640 | 4024 | 8637 | 314 | 30 | 9.5541 | |
| ckim-gatk | SNP | * | map_l125_m0_e0 | hetalt | 36.3636 | 22.2222 | 100.0000 | 97.9167 | 2 | 7 | 2 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l125_m0_e0 | homalt | 69.4469 | 53.2181 | 99.9161 | 80.0469 | 3572 | 3140 | 3572 | 3 | 1 | 33.3333 | |
| ckim-gatk | SNP | * | map_l125_m1_e0 | * | 84.2159 | 73.9471 | 97.7967 | 84.1626 | 33518 | 11809 | 33512 | 755 | 58 | 7.6821 | |
| ckim-gatk | SNP | * | map_l125_m1_e0 | het | 88.2494 | 81.0510 | 96.8511 | 86.4318 | 23012 | 5380 | 23006 | 748 | 54 | 7.2193 | |
| ckim-gatk | SNP | * | map_l125_m1_e0 | hetalt | 75.0000 | 60.0000 | 100.0000 | 91.3462 | 18 | 12 | 18 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l125_m1_e0 | homalt | 76.5547 | 62.0408 | 99.9333 | 74.4573 | 10488 | 6417 | 10488 | 7 | 4 | 57.1429 | |
| ckim-gatk | SNP | * | map_l125_m2_e0 | * | 84.6410 | 74.5907 | 97.8215 | 85.1222 | 34851 | 11872 | 34845 | 776 | 59 | 7.6031 | |
| ckim-gatk | SNP | * | map_l125_m2_e0 | het | 88.5829 | 81.5915 | 96.8846 | 87.2138 | 23921 | 5397 | 23915 | 769 | 55 | 7.1522 | |
| ckim-gatk | SNP | * | map_l125_m2_e0 | hetalt | 75.0000 | 60.0000 | 100.0000 | 92.8854 | 18 | 12 | 18 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l125_m2_e0 | homalt | 77.1330 | 62.8029 | 99.9359 | 76.3243 | 10912 | 6463 | 10912 | 7 | 4 | 57.1429 | |
| ckim-gatk | SNP | * | map_l125_m2_e1 | * | 84.7700 | 74.7850 | 97.8324 | 85.1204 | 35300 | 11902 | 35294 | 782 | 60 | 7.6726 | |
| ckim-gatk | SNP | * | map_l125_m2_e1 | het | 88.6934 | 81.7679 | 96.9006 | 87.2177 | 24236 | 5404 | 24230 | 775 | 56 | 7.2258 | |
| ckim-gatk | SNP | * | map_l125_m2_e1 | hetalt | 75.0000 | 60.0000 | 100.0000 | 92.8854 | 18 | 12 | 18 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l125_m2_e1 | homalt | 77.2853 | 63.0048 | 99.9367 | 76.2699 | 11046 | 6486 | 11046 | 7 | 4 | 57.1429 | |
| ckim-gatk | SNP | * | map_l150_m0_e0 | * | 72.2501 | 57.4634 | 97.2832 | 92.5200 | 6914 | 5118 | 6911 | 193 | 26 | 13.4715 | |
| ckim-gatk | SNP | * | map_l150_m0_e0 | het | 75.5141 | 62.1285 | 96.2515 | 93.6797 | 4933 | 3007 | 4930 | 192 | 25 | 13.0208 | |
| ckim-gatk | SNP | * | map_l150_m0_e0 | hetalt | 50.0000 | 33.3333 | 100.0000 | 98.7952 | 1 | 2 | 1 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l150_m0_e0 | homalt | 65.2389 | 48.4226 | 99.9495 | 85.6968 | 1980 | 2109 | 1980 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | * | map_l150_m1_e0 | * | 80.0337 | 67.8232 | 97.6062 | 88.0251 | 20760 | 9849 | 20754 | 509 | 42 | 8.2515 | |
| ckim-gatk | SNP | * | map_l150_m1_e0 | het | 84.3543 | 74.8499 | 96.6237 | 89.7210 | 14458 | 4858 | 14452 | 505 | 40 | 7.9208 | |
| ckim-gatk | SNP | * | map_l150_m1_e0 | hetalt | 70.9677 | 55.0000 | 100.0000 | 93.8202 | 11 | 9 | 11 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l150_m1_e0 | homalt | 71.6189 | 55.8059 | 99.9365 | 80.2510 | 6291 | 4982 | 6291 | 4 | 2 | 50.0000 | |
| ckim-gatk | SNP | * | map_l150_m2_e0 | * | 80.7304 | 68.8246 | 97.6170 | 88.6980 | 21922 | 9930 | 21916 | 535 | 43 | 8.0374 | |
| ckim-gatk | SNP | * | map_l150_m2_e0 | het | 84.9182 | 75.7364 | 96.6335 | 90.2699 | 15248 | 4885 | 15242 | 531 | 41 | 7.7213 | |