PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14051-14100 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | SNP | ti | map_l150_m2_e1 | het | 75.2791 | 60.6685 | 99.1595 | 91.7406 | 7896 | 5119 | 7904 | 67 | 22 | 32.8358 | |
| gduggal-bwavard | INDEL | * | map_l150_m0_e0 | het | 83.4371 | 98.2405 | 72.5108 | 94.3348 | 335 | 6 | 335 | 127 | 22 | 17.3228 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l100_m2_e1 | het | 62.5555 | 88.2353 | 48.4536 | 93.1449 | 45 | 6 | 47 | 50 | 22 | 44.0000 | |
| gduggal-bwavard | INDEL | D1_5 | HG002complexvar | homalt | 96.6460 | 93.8290 | 99.6373 | 42.9597 | 9944 | 654 | 9340 | 34 | 22 | 64.7059 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 61.5021 | 60.6742 | 62.3529 | 71.9472 | 54 | 35 | 53 | 32 | 22 | 68.7500 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 73.4853 | 92.4528 | 60.9756 | 70.1818 | 49 | 4 | 50 | 32 | 22 | 68.7500 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m2_e0 | het | 94.2428 | 98.1891 | 90.6015 | 91.4662 | 488 | 9 | 482 | 50 | 22 | 44.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m2_e1 | het | 94.3638 | 98.2283 | 90.7919 | 91.5103 | 499 | 9 | 493 | 50 | 22 | 44.0000 | |
| gduggal-bwavard | SNP | ti | map_l250_m2_e1 | het | 88.2543 | 97.7266 | 80.4560 | 93.2754 | 3224 | 75 | 3211 | 780 | 22 | 2.8205 | |
| gduggal-snapfb | INDEL | * | map_l100_m0_e0 | * | 92.7347 | 91.6827 | 93.8111 | 85.2162 | 1433 | 130 | 1440 | 95 | 22 | 23.1579 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e0 | het | 93.1137 | 91.5475 | 94.7345 | 82.7714 | 2112 | 195 | 2159 | 120 | 22 | 18.3333 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e1 | het | 92.9455 | 91.2079 | 94.7505 | 82.9512 | 2137 | 206 | 2184 | 121 | 22 | 18.1818 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 94.5232 | 90.1786 | 99.3077 | 80.7697 | 8383 | 913 | 3156 | 22 | 22 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | HG002complexvar | homalt | 87.0748 | 82.8479 | 91.7563 | 38.8158 | 256 | 53 | 256 | 23 | 22 | 95.6522 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.8863 | 96.6892 | 99.1133 | 68.8334 | 2570 | 88 | 2571 | 23 | 22 | 95.6522 | |
| gduggal-bwafb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.3470 | 98.2759 | 88.8889 | 80.5601 | 2964 | 52 | 2968 | 371 | 22 | 5.9299 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6346 | 99.4826 | 99.7870 | 59.5165 | 16344 | 85 | 17330 | 37 | 22 | 59.4595 | |
| cchapple-custom | INDEL | * | map_l100_m0_e0 | * | 95.2252 | 96.0972 | 94.3688 | 85.7659 | 1502 | 61 | 1525 | 91 | 22 | 24.1758 | |
| cchapple-custom | INDEL | D16_PLUS | HG002compoundhet | homalt | 29.7030 | 75.0000 | 18.5185 | 49.0566 | 6 | 2 | 5 | 22 | 22 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7204 | 98.1014 | 99.3473 | 45.8867 | 3617 | 70 | 3653 | 24 | 22 | 91.6667 | |
| ciseli-custom | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 35.5556 | 100.0000 | 21.6216 | 96.1973 | 1 | 0 | 24 | 87 | 22 | 25.2874 | |
| ciseli-custom | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 15.7895 | 95.5649 | 0 | 0 | 15 | 80 | 22 | 27.5000 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m1_e0 | het | 74.8992 | 68.5950 | 82.4793 | 92.0478 | 498 | 228 | 499 | 106 | 22 | 20.7547 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m2_e1 | het | 72.4170 | 65.5172 | 80.9412 | 93.9878 | 342 | 180 | 344 | 81 | 22 | 27.1605 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5576 | 95.6170 | 99.5787 | 50.2750 | 5672 | 260 | 5672 | 24 | 22 | 91.6667 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4847 | 99.7826 | 99.1887 | 63.5467 | 35342 | 77 | 35331 | 289 | 22 | 7.6125 | |
| ckim-gatk | SNP | ti | map_l125_m0_e0 | het | 80.6416 | 69.0185 | 96.9723 | 90.3096 | 5703 | 2560 | 5701 | 178 | 22 | 12.3596 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.0978 | 97.8306 | 96.3760 | 82.9898 | 947 | 21 | 851 | 32 | 22 | 68.7500 | |
| ckim-gatk | INDEL | D16_PLUS | * | homalt | 99.0314 | 99.7045 | 98.3673 | 70.9863 | 1687 | 5 | 1687 | 28 | 22 | 78.5714 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6910 | 99.5997 | 97.7987 | 75.1563 | 1244 | 5 | 1244 | 28 | 22 | 78.5714 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6910 | 99.5997 | 97.7987 | 75.1563 | 1244 | 5 | 1244 | 28 | 22 | 78.5714 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.8208 | 99.5074 | 94.2755 | 84.0377 | 606 | 3 | 527 | 32 | 22 | 68.7500 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | het | 99.0142 | 98.9423 | 99.0862 | 59.4709 | 3087 | 33 | 3036 | 28 | 22 | 78.5714 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.8298 | 96.1383 | 99.5819 | 26.2302 | 5228 | 210 | 5240 | 22 | 22 | 100.0000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.6989 | 96.2429 | 99.1997 | 49.1264 | 2869 | 112 | 2975 | 24 | 22 | 91.6667 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.0578 | 96.0317 | 98.1061 | 87.2243 | 1694 | 70 | 1813 | 35 | 22 | 62.8571 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0168 | 97.1706 | 98.8778 | 83.5902 | 2301 | 67 | 2379 | 27 | 22 | 81.4815 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3592 | 95.2372 | 99.5780 | 26.4946 | 5179 | 259 | 5191 | 22 | 22 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | HG002complexvar | het | 99.6858 | 99.5712 | 99.8007 | 57.6433 | 18111 | 78 | 18030 | 36 | 22 | 61.1111 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.6613 | 88.2236 | 97.5691 | 65.2191 | 884 | 118 | 883 | 22 | 22 | 100.0000 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 26.2261 | 75.3623 | 15.8754 | 79.0455 | 208 | 68 | 214 | 1134 | 22 | 1.9400 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 26.8960 | 70.2970 | 16.6292 | 88.2926 | 71 | 30 | 74 | 371 | 22 | 5.9299 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 96.7002 | 99.5423 | 94.0159 | 40.8529 | 1305 | 6 | 1304 | 83 | 22 | 26.5060 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m0_e0 | * | 72.5984 | 69.9029 | 75.5102 | 84.8765 | 72 | 31 | 111 | 36 | 22 | 61.1111 | |
| gduggal-snapvard | INDEL | I16_PLUS | * | homalt | 1.5180 | 0.7687 | 60.0000 | 43.7086 | 12 | 1549 | 51 | 34 | 22 | 64.7059 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 1.1095 | 0.5618 | 44.1176 | 64.0212 | 1 | 177 | 30 | 38 | 22 | 57.8947 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 1.8131 | 0.9259 | 43.2836 | 64.1711 | 1 | 107 | 29 | 38 | 22 | 57.8947 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 53.4023 | 37.0119 | 95.8478 | 69.3856 | 436 | 742 | 554 | 24 | 22 | 91.6667 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.1125 | 83.1756 | 93.6725 | 88.6078 | 791 | 160 | 755 | 51 | 22 | 43.1373 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.5819 | 93.2562 | 98.0265 | 65.1478 | 3222 | 233 | 3179 | 64 | 22 | 34.3750 | |