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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73051-73100 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.8657 | 45.0761 | 89.0995 | 75.7842 | 563 | 686 | 564 | 69 | 66 | 95.6522 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.8657 | 45.0761 | 89.0995 | 75.7842 | 563 | 686 | 564 | 69 | 66 | 95.6522 | |
| gduggal-snapfb | INDEL | I6_15 | HG002complexvar | hetalt | 60.2641 | 50.3679 | 75.0000 | 58.1818 | 616 | 607 | 207 | 69 | 66 | 95.6522 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 25.0000 | 67.1429 | 0 | 206 | 23 | 69 | 23 | 33.3333 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 24.1758 | 67.1480 | 0 | 95 | 22 | 69 | 23 | 33.3333 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 28.1250 | 61.4458 | 0 | 497 | 27 | 69 | 24 | 34.7826 | |
| anovak-vg | INDEL | I6_15 | map_siren | homalt | 64.5973 | 83.3333 | 52.7397 | 70.1431 | 75 | 15 | 77 | 69 | 60 | 86.9565 | |
| bgallagher-sentieon | SNP | tv | HG002complexvar | het | 99.9389 | 99.9237 | 99.9542 | 21.4883 | 150616 | 115 | 150540 | 69 | 21 | 30.4348 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2570 | 93.3938 | 99.3014 | 31.9625 | 9783 | 692 | 9808 | 69 | 68 | 98.5507 | |
| rpoplin-dv42 | INDEL | I6_15 | * | homalt | 97.7056 | 96.5700 | 98.8683 | 48.6914 | 6025 | 214 | 6028 | 69 | 68 | 98.5507 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.1109 | 98.8558 | 86.2275 | 47.5941 | 432 | 5 | 432 | 69 | 69 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.3178 | 93.0147 | 93.6229 | 58.8750 | 1012 | 76 | 1013 | 69 | 50 | 72.4638 | |
| ckim-vqsr | INDEL | I1_5 | HG002compoundhet | het | 94.8823 | 98.1176 | 91.8536 | 86.7262 | 834 | 16 | 778 | 69 | 67 | 97.1014 | |
| egarrison-hhga | SNP | * | map_l125_m1_e0 | het | 99.2263 | 98.7039 | 99.7544 | 69.9636 | 28024 | 368 | 28024 | 69 | 28 | 40.5797 | |
| egarrison-hhga | SNP | * | map_l150_m2_e1 | * | 99.3609 | 98.9413 | 99.7840 | 74.9205 | 31869 | 341 | 31869 | 69 | 32 | 46.3768 | |
| dgrover-gatk | INDEL | I16_PLUS | * | homalt | 97.7415 | 99.8078 | 95.7591 | 72.2497 | 1558 | 3 | 1558 | 69 | 66 | 95.6522 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.1362 | 81.1475 | 85.2248 | 77.0629 | 396 | 92 | 398 | 69 | 22 | 31.8841 | |
| ckim-isaac | SNP | * | * | homalt | 98.3805 | 96.8182 | 99.9940 | 14.4545 | 1142612 | 37550 | 1142668 | 69 | 50 | 72.4638 | |
| ckim-isaac | SNP | * | map_l125_m2_e1 | * | 73.7959 | 58.5590 | 99.7510 | 72.8548 | 27641 | 19561 | 27643 | 69 | 17 | 24.6377 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.4572 | 94.0150 | 99.0295 | 31.3640 | 7006 | 446 | 7041 | 69 | 48 | 69.5652 | |
| ckim-vqsr | INDEL | D16_PLUS | HG002compoundhet | het | 88.8043 | 99.2593 | 80.3419 | 59.7015 | 402 | 3 | 282 | 69 | 67 | 97.1014 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 72.8440 | 62.9842 | 86.3636 | 38.2927 | 439 | 258 | 437 | 69 | 65 | 94.2029 | |
| dgrover-gatk | INDEL | * | * | hetalt | 96.9073 | 94.2584 | 99.7094 | 58.4640 | 23788 | 1449 | 24018 | 70 | 68 | 97.1429 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.8283 | 92.7831 | 96.9658 | 59.2331 | 2237 | 174 | 2237 | 70 | 66 | 94.2857 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2155 | 98.8292 | 99.6047 | 53.9964 | 17642 | 209 | 17640 | 70 | 27 | 38.5714 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.8029 | 98.7545 | 98.8513 | 71.4513 | 6026 | 76 | 6024 | 70 | 13 | 18.5714 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 93.3753 | 98.5816 | 88.6914 | 66.8807 | 556 | 8 | 549 | 70 | 69 | 98.5714 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e0 | het | 98.9081 | 98.0635 | 99.7675 | 53.0390 | 30029 | 593 | 30032 | 70 | 6 | 8.5714 | |
| ndellapenna-hhga | INDEL | I16_PLUS | HG002compoundhet | het | 51.2283 | 72.3404 | 39.6552 | 84.3243 | 34 | 13 | 46 | 70 | 55 | 78.5714 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 88.3102 | 87.5375 | 89.0966 | 84.7216 | 583 | 83 | 572 | 70 | 42 | 60.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 88.3102 | 87.5375 | 89.0966 | 84.7216 | 583 | 83 | 572 | 70 | 42 | 60.0000 | |
| qzeng-custom | SNP | * | map_l150_m2_e0 | homalt | 80.6830 | 68.0315 | 99.1149 | 73.2795 | 7959 | 3740 | 7839 | 70 | 70 | 100.0000 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.1982 | 95.0000 | 91.4634 | 89.5261 | 684 | 36 | 750 | 70 | 22 | 31.4286 | |
| qzeng-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.9066 | 98.3509 | 95.5042 | 77.2302 | 1491 | 25 | 1487 | 70 | 13 | 18.5714 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 94.8561 | 97.7330 | 92.1437 | 91.1616 | 776 | 18 | 821 | 70 | 14 | 20.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | * | 96.2411 | 93.4780 | 99.1726 | 30.6557 | 8442 | 589 | 8390 | 70 | 63 | 90.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6359 | 97.7403 | 99.5481 | 71.8594 | 15225 | 352 | 15420 | 70 | 31 | 44.2857 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e0 | * | 96.1968 | 98.3377 | 94.1472 | 90.8640 | 1124 | 19 | 1126 | 70 | 6 | 8.5714 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 96.2418 | 98.3578 | 94.2149 | 90.9091 | 1138 | 19 | 1140 | 70 | 6 | 8.5714 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.1277 | 99.0847 | 86.0835 | 48.4103 | 433 | 4 | 433 | 70 | 70 | 100.0000 | |
| jmaeng-gatk | SNP | ti | * | homalt | 99.6264 | 99.2642 | 99.9912 | 16.0789 | 797129 | 5909 | 797120 | 70 | 46 | 65.7143 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.7633 | 44.9960 | 88.9590 | 75.7274 | 562 | 687 | 564 | 70 | 67 | 95.7143 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.7633 | 44.9960 | 88.9590 | 75.7274 | 562 | 687 | 564 | 70 | 67 | 95.7143 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3085 | 95.2111 | 99.5005 | 59.4918 | 13917 | 700 | 13943 | 70 | 38 | 54.2857 | |
| jli-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.1711 | 94.2520 | 98.1699 | 58.1784 | 3755 | 229 | 3755 | 70 | 62 | 88.5714 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.2231 | 99.8046 | 98.6484 | 46.1418 | 5107 | 10 | 5109 | 70 | 68 | 97.1429 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2319 | 99.4770 | 98.9880 | 80.7127 | 6847 | 36 | 6847 | 70 | 12 | 17.1429 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | * | 94.7100 | 90.6791 | 99.1159 | 32.9210 | 7958 | 818 | 7848 | 70 | 64 | 91.4286 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.5396 | 99.3917 | 97.7019 | 59.4515 | 2941 | 18 | 2976 | 70 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.7961 | 99.2900 | 96.3466 | 63.0116 | 1818 | 13 | 1846 | 70 | 0 | 0.0000 | |