PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51201-51250 / 86044 show all | |||||||||||||||
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 87.3175 | 87.0886 | 87.5476 | 72.9553 | 1376 | 204 | 1378 | 196 | 10 | 5.1020 | |
| gduggal-snapfb | SNP | * | * | * | 99.2501 | 99.8026 | 98.7037 | 23.6262 | 3048604 | 6030 | 3049548 | 40049 | 2047 | 5.1112 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.2637 | 99.3096 | 91.5345 | 77.9592 | 30928 | 215 | 29962 | 2771 | 142 | 5.1245 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.2637 | 99.3096 | 91.5345 | 77.9592 | 30928 | 215 | 29962 | 2771 | 142 | 5.1245 | |
| astatham-gatk | SNP | * | segdup | het | 98.7752 | 97.7998 | 99.7702 | 91.3893 | 16936 | 381 | 16930 | 39 | 2 | 5.1282 | |
| cchapple-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 82.0276 | 96.1532 | 0 | 1 | 178 | 39 | 2 | 5.1282 | |
| cchapple-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 0.0000 | 0.0000 | 82.0276 | 96.1532 | 0 | 1 | 178 | 39 | 2 | 5.1282 | |
| jlack-gatk | INDEL | * | map_l125_m0_e0 | * | 92.6519 | 97.7324 | 88.0734 | 92.1312 | 862 | 20 | 864 | 117 | 6 | 5.1282 | |
| hfeng-pmm2 | SNP | tv | map_l250_m1_e0 | het | 97.7031 | 97.5937 | 97.8127 | 89.8457 | 1744 | 43 | 1744 | 39 | 2 | 5.1282 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3650 | 99.8551 | 98.8796 | 40.1582 | 3445 | 5 | 3442 | 39 | 2 | 5.1282 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.0481 | 99.9065 | 98.2044 | 43.3046 | 2136 | 2 | 2133 | 39 | 2 | 5.1282 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m1_e0 | * | 82.4097 | 78.1927 | 87.1074 | 91.8447 | 1047 | 292 | 1054 | 156 | 8 | 5.1282 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8309 | 99.3772 | 98.2905 | 53.9062 | 6702 | 42 | 6727 | 117 | 6 | 5.1282 | |
| jmaeng-gatk | SNP | * | map_l250_m0_e0 | het | 63.5159 | 47.7424 | 94.8549 | 98.4462 | 719 | 787 | 719 | 39 | 2 | 5.1282 | |
| jlack-gatk | SNP | tv | map_l100_m2_e1 | het | 94.4530 | 99.3286 | 90.0336 | 81.3037 | 15831 | 107 | 15827 | 1752 | 90 | 5.1370 | |
| jlack-gatk | SNP | tv | map_l100_m2_e0 | het | 94.4020 | 99.3218 | 89.9466 | 81.2769 | 15670 | 107 | 15666 | 1751 | 90 | 5.1399 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 71.9561 | 72.9860 | 70.9549 | 92.4413 | 3026 | 1120 | 3039 | 1244 | 64 | 5.1447 | |
| jmaeng-gatk | INDEL | D1_5 | map_siren | het | 97.5886 | 99.3412 | 95.8968 | 85.7195 | 2262 | 15 | 2267 | 97 | 5 | 5.1546 | |
| bgallagher-sentieon | SNP | ti | * | het | 99.9232 | 99.9613 | 99.8851 | 18.4052 | 1281395 | 496 | 1281341 | 1474 | 76 | 5.1560 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 65.5717 | 86.0759 | 52.9568 | 90.4618 | 1224 | 198 | 1200 | 1066 | 55 | 5.1595 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | het | 92.1348 | 98.8831 | 86.2488 | 87.0469 | 7171 | 81 | 7169 | 1143 | 59 | 5.1619 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 62.1311 | 88.2872 | 47.9310 | 90.8828 | 701 | 93 | 695 | 755 | 39 | 5.1656 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m0_e0 | het | 94.5649 | 98.4772 | 90.9516 | 90.5332 | 582 | 9 | 583 | 58 | 3 | 5.1724 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m1_e0 | het | 95.4470 | 98.0695 | 92.9612 | 88.8271 | 762 | 15 | 766 | 58 | 3 | 5.1724 | |
| qzeng-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.6977 | 98.9130 | 94.5794 | 80.5719 | 2002 | 22 | 2024 | 116 | 6 | 5.1724 | |
| gduggal-snapfb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.4727 | 98.6270 | 80.2142 | 81.5986 | 1724 | 24 | 1723 | 425 | 22 | 5.1765 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4029 | 99.5574 | 99.2487 | 52.2265 | 17772 | 79 | 17835 | 135 | 7 | 5.1852 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.1047 | 96.5517 | 66.9981 | 74.4486 | 3136 | 112 | 3167 | 1560 | 81 | 5.1923 | |
| gduggal-snapplat | INDEL | I1_5 | map_l125_m2_e1 | * | 84.0458 | 78.8506 | 89.9740 | 94.0271 | 686 | 184 | 691 | 77 | 4 | 5.1948 | |
| raldana-dualsentieon | SNP | * | * | * | 99.9260 | 99.9131 | 99.9389 | 18.4181 | 3051965 | 2654 | 3051826 | 1867 | 97 | 5.1955 | |
| jlack-gatk | SNP | tv | map_l100_m0_e0 | het | 91.9563 | 98.9477 | 85.8877 | 83.2329 | 7146 | 76 | 7145 | 1174 | 61 | 5.1959 | |
| raldana-dualsentieon | SNP | tv | * | * | 99.9049 | 99.8971 | 99.9127 | 21.2799 | 968692 | 998 | 968612 | 846 | 44 | 5.2010 | |
| jlack-gatk | SNP | tv | map_l150_m2_e1 | het | 92.1722 | 98.8977 | 86.3032 | 87.0729 | 7267 | 81 | 7265 | 1153 | 60 | 5.2038 | |
| asubramanian-gatk | SNP | tv | * | * | 98.7904 | 97.7276 | 99.8765 | 24.3508 | 947655 | 22035 | 947577 | 1172 | 61 | 5.2048 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.0585 | 99.7289 | 92.6487 | 50.1527 | 11402 | 31 | 10889 | 864 | 45 | 5.2083 | |
| jlack-gatk | SNP | tv | map_l100_m1_e0 | het | 94.3447 | 99.3060 | 89.8556 | 80.1334 | 15310 | 107 | 15306 | 1728 | 90 | 5.2083 | |
| mlin-fermikit | SNP | ti | map_l150_m2_e1 | het | 56.1207 | 39.2931 | 98.1570 | 69.2394 | 5114 | 7901 | 5113 | 96 | 5 | 5.2083 | |
| ckim-vqsr | SNP | tv | * | * | 99.1585 | 98.4420 | 99.8855 | 27.4583 | 954582 | 15108 | 954496 | 1094 | 57 | 5.2102 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 88.3579 | 90.8190 | 86.0267 | 90.7720 | 1375 | 139 | 1416 | 230 | 12 | 5.2174 | |
| jlack-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1812 | 99.7479 | 98.6208 | 60.0301 | 17806 | 45 | 17805 | 249 | 13 | 5.2209 | |
| mlin-fermikit | SNP | ti | map_l125_m1_e0 | het | 61.0167 | 44.2242 | 98.3680 | 59.8543 | 8078 | 10188 | 8077 | 134 | 7 | 5.2239 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.2056 | 96.5856 | 93.8645 | 49.5961 | 2065 | 73 | 2050 | 134 | 7 | 5.2239 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 80.1599 | 93.1385 | 70.3560 | 81.4743 | 2932 | 216 | 2905 | 1224 | 64 | 5.2288 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 78.7301 | 78.1671 | 79.3012 | 91.5881 | 7139 | 1994 | 7172 | 1872 | 98 | 5.2350 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 78.7301 | 78.1671 | 79.3012 | 91.5881 | 7139 | 1994 | 7172 | 1872 | 98 | 5.2350 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.1521 | 99.7642 | 92.7925 | 63.8373 | 2538 | 6 | 2459 | 191 | 10 | 5.2356 | |
| ckim-dragen | SNP | tv | * | * | 99.8136 | 99.9495 | 99.6782 | 25.0811 | 969200 | 490 | 969499 | 3130 | 164 | 5.2396 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 47.8156 | 40.9091 | 57.5278 | 84.8321 | 882 | 1274 | 982 | 725 | 38 | 5.2414 | |
| gduggal-snapvard | SNP | tv | map_l100_m0_e0 | het | 88.9755 | 97.1199 | 82.0913 | 81.3435 | 7014 | 208 | 6995 | 1526 | 80 | 5.2425 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | het | 91.9297 | 98.8339 | 85.9271 | 86.1869 | 6865 | 81 | 6863 | 1124 | 59 | 5.2491 | |