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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
34001-34050 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 81.0388 | 91.2786 | 72.8646 | 69.9021 | 1235 | 118 | 1254 | 467 | 416 | 89.0792 | |
| jmaeng-gatk | INDEL | * | HG002compoundhet | hetalt | 95.3319 | 91.2708 | 99.7711 | 50.5352 | 22982 | 2198 | 23098 | 53 | 53 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9102 | 91.2700 | 94.6103 | 54.6326 | 3586 | 343 | 3581 | 204 | 197 | 96.5686 | |
| jpowers-varprowl | INDEL | D6_15 | map_l100_m1_e0 | het | 74.6753 | 91.2698 | 63.1868 | 86.5683 | 115 | 11 | 115 | 67 | 64 | 95.5224 | |
| asubramanian-gatk | INDEL | D6_15 | map_l125_m2_e0 | * | 94.2623 | 91.2698 | 97.4576 | 92.5174 | 115 | 11 | 115 | 3 | 1 | 33.3333 | |
| egarrison-hhga | INDEL | D6_15 | map_l125_m2_e0 | * | 93.1750 | 91.2698 | 95.1613 | 88.9581 | 115 | 11 | 118 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l125_m2_e0 | * | 92.0843 | 91.2698 | 92.9134 | 89.3990 | 115 | 11 | 118 | 9 | 5 | 55.5556 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7238 | 91.2679 | 98.4516 | 67.1749 | 763 | 73 | 763 | 12 | 11 | 91.6667 | |
| rpoplin-dv42 | INDEL | I16_PLUS | * | * | 94.2741 | 91.2655 | 97.4879 | 59.7696 | 5820 | 557 | 5821 | 150 | 140 | 93.3333 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e1 | * | 93.3986 | 91.2649 | 95.6344 | 83.1005 | 15202 | 1455 | 15203 | 694 | 360 | 51.8732 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l150_m2_e0 | het | 95.1038 | 91.2621 | 99.2832 | 83.3631 | 282 | 27 | 277 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 93.0936 | 91.2621 | 95.0000 | 91.5896 | 94 | 9 | 95 | 5 | 1 | 20.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.2356 | 91.2621 | 97.4093 | 87.4594 | 188 | 18 | 188 | 5 | 2 | 40.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.7656 | 91.2621 | 96.4103 | 87.8429 | 188 | 18 | 188 | 7 | 2 | 28.5714 | |
| egarrison-hhga | INDEL | D6_15 | map_l100_m0_e0 | * | 92.6956 | 91.2621 | 94.1748 | 88.1609 | 94 | 9 | 97 | 6 | 2 | 33.3333 | |
| gduggal-snapplat | SNP | tv | map_l150_m1_e0 | het | 91.7565 | 91.2612 | 92.2573 | 87.5714 | 6339 | 607 | 6339 | 532 | 282 | 53.0075 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.0984 | 91.2587 | 99.2754 | 54.6053 | 261 | 25 | 274 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | HG002compoundhet | hetalt | 95.4049 | 91.2566 | 99.9482 | 45.8824 | 1910 | 183 | 1931 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m2_e1 | homalt | 95.0081 | 91.2536 | 99.0847 | 78.9803 | 313 | 30 | 433 | 4 | 2 | 50.0000 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 82.0117 | 91.2515 | 74.4710 | 86.1394 | 8334 | 799 | 8235 | 2823 | 102 | 3.6132 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 82.0117 | 91.2515 | 74.4710 | 86.1394 | 8334 | 799 | 8235 | 2823 | 102 | 3.6132 | |
| jlack-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 95.3861 | 91.2510 | 99.9136 | 55.5641 | 1116 | 107 | 1157 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.2955 | 91.2500 | 95.4348 | 82.0942 | 438 | 42 | 439 | 21 | 10 | 47.6190 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 93.4142 | 91.2500 | 95.6835 | 86.3458 | 146 | 14 | 133 | 6 | 2 | 33.3333 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.9368 | 91.2482 | 98.9362 | 35.6164 | 636 | 61 | 744 | 8 | 8 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.9407 | 91.2482 | 98.9446 | 37.9197 | 636 | 61 | 750 | 8 | 8 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | HG002complexvar | homalt | 94.8874 | 91.2478 | 98.8294 | 44.5077 | 12271 | 1177 | 12242 | 145 | 45 | 31.0345 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 95.1973 | 91.2471 | 99.5050 | 29.3294 | 1178 | 113 | 1206 | 6 | 5 | 83.3333 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.4217 | 91.2442 | 100.0000 | 35.9756 | 198 | 19 | 210 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.7050 | 91.2434 | 96.3031 | 57.7013 | 521 | 50 | 521 | 20 | 16 | 80.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 85.3269 | 91.2425 | 80.1316 | 82.4013 | 1219 | 117 | 1218 | 302 | 5 | 1.6556 | |
| ltrigg-rtg1 | SNP | tv | map_l250_m0_e0 | * | 95.2899 | 91.2418 | 99.7139 | 86.9370 | 698 | 67 | 697 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0580 | 91.2409 | 99.2084 | 70.4829 | 375 | 36 | 376 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0580 | 91.2409 | 99.2084 | 70.5288 | 375 | 36 | 376 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002compoundhet | hetalt | 95.4154 | 91.2409 | 99.9902 | 55.7998 | 10198 | 979 | 10253 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0580 | 91.2409 | 99.2084 | 70.5288 | 375 | 36 | 376 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e0 | * | 94.8253 | 91.2387 | 98.7055 | 93.5812 | 302 | 29 | 305 | 4 | 1 | 25.0000 | |
| gduggal-snapvard | INDEL | * | map_l250_m2_e0 | * | 77.7005 | 91.2387 | 67.6609 | 95.5856 | 302 | 29 | 431 | 206 | 49 | 23.7864 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.4819 | 91.2377 | 87.7925 | 91.7885 | 833 | 80 | 863 | 120 | 5 | 4.1667 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 81.6855 | 91.2376 | 73.9439 | 67.5049 | 3686 | 354 | 4061 | 1431 | 1308 | 91.4046 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 80.6539 | 91.2376 | 72.2705 | 67.9116 | 3686 | 354 | 3912 | 1501 | 1377 | 91.7388 | |
| raldana-dualsentieon | INDEL | I1_5 | * | hetalt | 95.4134 | 91.2372 | 99.9903 | 60.4923 | 10214 | 981 | 10271 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | * | * | hetalt | 95.2835 | 91.2311 | 99.7126 | 56.1602 | 23024 | 2213 | 23247 | 67 | 66 | 98.5075 | |
| ckim-dragen | INDEL | I16_PLUS | * | hetalt | 95.3433 | 91.2297 | 99.8454 | 58.3691 | 1914 | 184 | 1937 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | * | hetalt | 95.3960 | 91.2291 | 99.9618 | 38.0362 | 7801 | 750 | 7841 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 93.6937 | 91.2281 | 96.2963 | 99.4858 | 52 | 5 | 52 | 2 | 0 | 0.0000 | |
| anovak-vg | INDEL | I1_5 | map_l125_m0_e0 | homalt | 66.4001 | 91.2281 | 52.1951 | 85.4403 | 104 | 10 | 107 | 98 | 91 | 92.8571 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l250_m1_e0 | * | 95.4128 | 91.2281 | 100.0000 | 91.6132 | 156 | 15 | 157 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 94.5924 | 91.2281 | 98.2143 | 99.2499 | 52 | 5 | 55 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | SNP | ti | map_siren | hetalt | 89.5492 | 91.2281 | 87.9310 | 76.7068 | 52 | 5 | 51 | 7 | 7 | 100.0000 | |