PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13001-13050 / 86044 show all | |||||||||||||||
| 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-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 72.8440 | 62.9842 | 86.3636 | 38.2927 | 439 | 258 | 437 | 69 | 65 | 94.2029 | |
| 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 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m0_e0 | het | 84.6379 | 80.8799 | 88.7622 | 92.9498 | 478 | 113 | 545 | 69 | 16 | 23.1884 | |
| gduggal-snapplat | INDEL | I1_5 | map_siren | homalt | 85.7005 | 79.2079 | 93.3526 | 86.1508 | 960 | 252 | 969 | 69 | 6 | 8.6957 | |
| gduggal-snapplat | SNP | * | func_cds | * | 99.4703 | 99.3223 | 99.6187 | 31.7106 | 18027 | 123 | 18027 | 69 | 5 | 7.2464 | |
| 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 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 95.3440 | 98.3778 | 92.4918 | 89.2439 | 849 | 14 | 850 | 69 | 5 | 7.2464 | |
| ckim-gatk | SNP | ti | map_l250_m2_e0 | * | 71.3054 | 56.1701 | 97.6058 | 96.1011 | 2813 | 2195 | 2813 | 69 | 9 | 13.0435 | |
| ckim-gatk | SNP | ti | map_l250_m2_e0 | het | 74.5328 | 60.6638 | 96.6226 | 96.6749 | 1974 | 1280 | 1974 | 69 | 9 | 13.0435 | |
| ckim-dragen | INDEL | D1_5 | map_siren | * | 98.3320 | 98.6115 | 98.0541 | 82.6974 | 3480 | 49 | 3477 | 69 | 7 | 10.1449 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m1_e0 | homalt | 81.4736 | 82.2350 | 80.7263 | 86.0483 | 287 | 62 | 289 | 69 | 57 | 82.6087 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 6.1644 | 3.6217 | 20.6897 | 83.3652 | 18 | 479 | 18 | 69 | 58 | 84.0580 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 27.8146 | 34.4262 | 23.3333 | 82.2835 | 21 | 40 | 21 | 69 | 62 | 89.8551 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 87.2686 | 88.7234 | 85.8607 | 64.7399 | 417 | 53 | 419 | 69 | 36 | 52.1739 | |
| ciseli-custom | INDEL | * | map_l250_m2_e0 | het | 58.1040 | 54.2857 | 62.5000 | 97.7123 | 114 | 96 | 115 | 69 | 33 | 47.8261 | |
| bgallagher-sentieon | SNP | tv | HG002complexvar | het | 99.9389 | 99.9237 | 99.9542 | 21.4883 | 150616 | 115 | 150540 | 69 | 21 | 30.4348 | |
| anovak-vg | INDEL | I6_15 | map_siren | homalt | 64.5973 | 83.3333 | 52.7397 | 70.1431 | 75 | 15 | 77 | 69 | 60 | 86.9565 | |
| qzeng-custom | SNP | * | map_l100_m0_e0 | homalt | 82.4060 | 70.4991 | 99.1522 | 62.7863 | 8192 | 3428 | 8070 | 69 | 68 | 98.5507 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e1 | het | 81.0781 | 72.2222 | 92.4092 | 89.7647 | 585 | 225 | 840 | 69 | 13 | 18.8406 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m1_e0 | * | 65.6309 | 53.5565 | 84.7345 | 81.1195 | 384 | 333 | 383 | 69 | 61 | 88.4058 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 75.6857 | 66.9578 | 87.0301 | 80.4555 | 460 | 227 | 463 | 69 | 64 | 92.7536 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 67.5878 | 77.1812 | 60.1156 | 69.6491 | 115 | 34 | 104 | 69 | 68 | 98.5507 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.8650 | 94.1645 | 97.6281 | 70.2647 | 2840 | 176 | 2840 | 69 | 8 | 11.5942 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002compoundhet | * | 97.5434 | 95.9362 | 99.2054 | 30.5780 | 8664 | 367 | 8615 | 69 | 63 | 91.3043 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | HG002compoundhet | * | 88.6244 | 82.1745 | 96.1730 | 41.5559 | 1761 | 382 | 1734 | 69 | 67 | 97.1014 | |
| ltrigg-rtg2 | SNP | * | HG002complexvar | homalt | 99.9218 | 99.8676 | 99.9761 | 19.6026 | 288192 | 382 | 288118 | 69 | 68 | 98.5507 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.1666 | 95.2420 | 97.1093 | 71.1366 | 2342 | 117 | 2318 | 69 | 36 | 52.1739 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2994 | 98.9826 | 99.6182 | 37.5156 | 17998 | 185 | 18004 | 69 | 46 | 66.6667 | |
| ndellapenna-hhga | SNP | * | map_l100_m0_e0 | het | 98.6808 | 97.7128 | 99.6681 | 67.9602 | 20720 | 485 | 20721 | 69 | 32 | 46.3768 | |
| ndellapenna-hhga | SNP | * | map_l150_m2_e1 | het | 98.6659 | 97.6968 | 99.6544 | 74.7044 | 19894 | 469 | 19894 | 69 | 30 | 43.4783 | |
| ndellapenna-hhga | SNP | tv | HG002complexvar | het | 99.7024 | 99.4520 | 99.9540 | 21.1664 | 149905 | 826 | 149923 | 69 | 30 | 43.4783 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 77.5000 | 97.6378 | 64.2487 | 59.3684 | 124 | 3 | 124 | 69 | 69 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 96.0523 | 98.2537 | 93.9474 | 90.3553 | 1069 | 19 | 1071 | 69 | 6 | 8.6957 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | * | 96.6675 | 94.0758 | 99.4060 | 64.7187 | 11624 | 732 | 11547 | 69 | 52 | 75.3623 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9815 | 99.4242 | 98.5428 | 38.7768 | 4662 | 27 | 4666 | 69 | 1 | 1.4493 | |
| jli-custom | SNP | tv | map_l100_m0_e0 | het | 98.7783 | 98.5184 | 99.0395 | 66.6140 | 7115 | 107 | 7115 | 69 | 20 | 28.9855 | |
| jpowers-varprowl | INDEL | I1_5 | segdup | het | 91.4882 | 95.1673 | 88.0829 | 95.5527 | 512 | 26 | 510 | 69 | 56 | 81.1594 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4310 | 96.6068 | 98.2694 | 64.7012 | 3929 | 138 | 3918 | 69 | 61 | 88.4058 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7078 | 96.2897 | 99.1684 | 59.0884 | 8097 | 312 | 8109 | 68 | 56 | 82.3529 | |
| ltrigg-rtg1 | SNP | * | map_l150_m2_e1 | * | 98.9386 | 98.1062 | 99.7853 | 68.9443 | 31600 | 610 | 31606 | 68 | 22 | 32.3529 | |
| ltrigg-rtg2 | INDEL | C1_5 | * | * | 91.7281 | 90.0000 | 93.5238 | 96.2656 | 9 | 1 | 982 | 68 | 6 | 8.8235 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.1277 | 91.4144 | 97.0070 | 58.8480 | 2204 | 207 | 2204 | 68 | 66 | 97.0588 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e0 | het | 95.1589 | 98.8220 | 91.7576 | 91.8438 | 755 | 9 | 757 | 68 | 4 | 5.8824 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 95.1951 | 98.8312 | 91.8171 | 91.9100 | 761 | 9 | 763 | 68 | 4 | 5.8824 | |
| jpowers-varprowl | SNP | tv | func_cds | * | 98.8262 | 99.1993 | 98.4559 | 36.2571 | 4336 | 35 | 4336 | 68 | 5 | 7.3529 | |