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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
47151-47200 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | * | map_l250_m2_e1 | * | 93.8972 | 94.8949 | 92.9204 | 96.3411 | 316 | 17 | 315 | 24 | 6 | 25.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l250_m2_e0 | * | 92.9204 | 92.9204 | 92.9204 | 96.3759 | 105 | 8 | 105 | 8 | 3 | 37.5000 | |
| ckim-isaac | INDEL | I1_5 | HG002complexvar | hetalt | 81.8382 | 73.1170 | 92.9216 | 55.9731 | 1262 | 464 | 1339 | 102 | 87 | 85.2941 | |
| qzeng-custom | INDEL | C1_5 | HG002complexvar | * | 80.7714 | 71.4286 | 92.9260 | 89.3893 | 5 | 2 | 289 | 22 | 4 | 18.1818 | |
| jmaeng-gatk | INDEL | * | map_l125_m1_e0 | het | 95.4569 | 98.1273 | 92.9279 | 92.1545 | 1310 | 25 | 1314 | 100 | 7 | 7.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.3478 | 97.8970 | 92.9280 | 84.6485 | 6517 | 140 | 6557 | 499 | 142 | 28.4569 | |
| ndellapenna-hhga | INDEL | D6_15 | segdup | het | 94.7959 | 96.7391 | 92.9293 | 94.1351 | 89 | 3 | 92 | 7 | 6 | 85.7143 | |
| gduggal-snapfb | INDEL | D1_5 | map_l150_m1_e0 | het | 94.3674 | 95.8506 | 92.9293 | 85.6812 | 462 | 20 | 460 | 35 | 5 | 14.2857 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 72.7768 | 59.8071 | 92.9293 | 81.5471 | 186 | 125 | 184 | 14 | 12 | 85.7143 | |
| bgallagher-sentieon | INDEL | * | map_l250_m1_e0 | het | 94.8454 | 96.8421 | 92.9293 | 96.3327 | 184 | 6 | 184 | 14 | 2 | 14.2857 | |
| asubramanian-gatk | INDEL | D1_5 | map_l125_m1_e0 | het | 89.7485 | 86.7769 | 92.9308 | 90.5838 | 630 | 96 | 631 | 48 | 4 | 8.3333 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.0858 | 99.4585 | 92.9344 | 71.8889 | 3857 | 21 | 3867 | 294 | 19 | 6.4626 | |
| qzeng-custom | INDEL | I6_15 | HG002complexvar | * | 92.2263 | 91.5275 | 92.9358 | 54.4267 | 4386 | 406 | 4473 | 340 | 144 | 42.3529 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.7546 | 84.9330 | 92.9364 | 52.1776 | 1522 | 270 | 1592 | 121 | 119 | 98.3471 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 90.8156 | 88.7866 | 92.9396 | 44.8670 | 5978 | 755 | 6279 | 477 | 242 | 50.7338 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.3454 | 95.7944 | 92.9397 | 77.9289 | 1435 | 63 | 1448 | 110 | 87 | 79.0909 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m2_e0 | * | 81.3204 | 72.2826 | 92.9412 | 97.5589 | 133 | 51 | 158 | 12 | 10 | 83.3333 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 88.7013 | 84.8315 | 92.9412 | 72.5806 | 151 | 27 | 158 | 12 | 4 | 33.3333 | |
| gduggal-snapplat | SNP | tv | map_l100_m0_e0 | het | 92.3125 | 91.6921 | 92.9413 | 85.1008 | 6622 | 600 | 6623 | 503 | 271 | 53.8767 | |
| cchapple-custom | SNP | tv | map_l250_m0_e0 | het | 93.7547 | 94.5804 | 92.9432 | 94.2561 | 541 | 31 | 540 | 41 | 8 | 19.5122 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.3116 | 95.7208 | 92.9434 | 47.3511 | 8008 | 358 | 8008 | 608 | 274 | 45.0658 | |
| jpowers-varprowl | INDEL | * | map_l100_m1_e0 | * | 91.2993 | 89.7100 | 92.9459 | 84.6574 | 3217 | 369 | 3215 | 244 | 196 | 80.3279 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.6412 | 98.4962 | 92.9471 | 83.5315 | 1310 | 20 | 1107 | 84 | 79 | 94.0476 | |
| ghariani-varprowl | SNP | * | map_l150_m0_e0 | het | 95.5372 | 98.2746 | 92.9482 | 86.2530 | 7803 | 137 | 7803 | 592 | 131 | 22.1284 | |
| gduggal-snapfb | INDEL | * | map_l150_m1_e0 | het | 92.2591 | 91.5789 | 92.9495 | 86.7487 | 783 | 72 | 791 | 60 | 12 | 20.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | * | homalt | 77.5728 | 66.5599 | 92.9527 | 53.9441 | 1039 | 522 | 1042 | 79 | 78 | 98.7342 | |
| anovak-vg | INDEL | D1_5 | segdup | homalt | 93.5483 | 94.1504 | 92.9539 | 93.9028 | 338 | 21 | 343 | 26 | 18 | 69.2308 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.1513 | 95.3774 | 92.9563 | 76.6652 | 11018 | 534 | 11046 | 837 | 110 | 13.1422 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.1513 | 95.3774 | 92.9563 | 76.6652 | 11018 | 534 | 11046 | 837 | 110 | 13.1422 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 94.9640 | 97.0588 | 92.9577 | 96.7356 | 66 | 2 | 66 | 5 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | map_l150_m1_e0 | * | 95.5806 | 98.3558 | 92.9577 | 92.6180 | 1316 | 22 | 1320 | 100 | 9 | 9.0000 | |
| 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 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m1_e0 | het | 93.6988 | 94.4444 | 92.9648 | 84.0673 | 119 | 7 | 185 | 14 | 7 | 50.0000 | |
| qzeng-custom | INDEL | * | map_l125_m0_e0 | * | 81.0033 | 71.7687 | 92.9654 | 94.3128 | 633 | 249 | 859 | 65 | 24 | 36.9231 | |
| gduggal-snapplat | SNP | * | map_l150_m1_e0 | het | 92.4706 | 91.9807 | 92.9658 | 86.7974 | 17767 | 1549 | 17789 | 1346 | 738 | 54.8291 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 85.4527 | 79.0606 | 92.9693 | 74.0678 | 9039 | 2394 | 9058 | 685 | 58 | 8.4672 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002complexvar | homalt | 93.4091 | 93.8511 | 92.9712 | 64.6727 | 290 | 19 | 291 | 22 | 18 | 81.8182 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5326 | 98.2332 | 92.9766 | 69.7368 | 278 | 5 | 278 | 21 | 21 | 100.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 95.3664 | 97.8824 | 92.9766 | 48.8889 | 832 | 18 | 834 | 63 | 21 | 33.3333 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5326 | 98.2332 | 92.9766 | 69.5519 | 278 | 5 | 278 | 21 | 21 | 100.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.5573 | 82.7344 | 92.9773 | 75.9228 | 944 | 197 | 940 | 71 | 43 | 60.5634 | |
| jpowers-varprowl | SNP | tv | map_l150_m0_e0 | het | 93.9990 | 95.0405 | 92.9800 | 87.0071 | 2702 | 141 | 2702 | 204 | 53 | 25.9804 | |
| cchapple-custom | INDEL | I1_5 | map_l250_m1_e0 | het | 90.5983 | 88.3333 | 92.9825 | 96.4574 | 53 | 7 | 53 | 4 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l250_m2_e1 | * | 92.9825 | 92.9825 | 92.9825 | 96.4607 | 106 | 8 | 106 | 8 | 3 | 37.5000 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m2_e1 | * | 81.4309 | 72.4324 | 92.9825 | 97.5939 | 134 | 51 | 159 | 12 | 10 | 83.3333 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 84.1376 | 76.8293 | 92.9825 | 64.4860 | 63 | 19 | 106 | 8 | 8 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l250_m2_e0 | * | 93.3921 | 93.8053 | 92.9825 | 95.4272 | 106 | 7 | 106 | 8 | 1 | 12.5000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 92.9010 | 92.8196 | 92.9825 | 55.8140 | 530 | 41 | 530 | 40 | 38 | 95.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.0943 | 97.2973 | 92.9889 | 49.2509 | 252 | 7 | 252 | 19 | 17 | 89.4737 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.6938 | 96.4613 | 92.9899 | 50.7135 | 3053 | 112 | 3051 | 230 | 72 | 31.3043 | |