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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70201-70250 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e0 | * | 98.9478 | 98.1084 | 99.8017 | 69.1640 | 20124 | 388 | 20128 | 40 | 16 | 40.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e1 | * | 98.9537 | 98.1229 | 99.7988 | 69.2768 | 20334 | 389 | 20338 | 41 | 16 | 39.0244 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 57.4586 | 80.0000 | 44.8276 | 74.3363 | 12 | 3 | 13 | 16 | 16 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 77.7563 | 75.0000 | 80.7229 | 62.2727 | 69 | 23 | 67 | 16 | 16 | 100.0000 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 87.7527 | 90.7596 | 84.9385 | 91.1277 | 1601 | 163 | 1658 | 294 | 16 | 5.4422 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4182 | 99.4576 | 99.3789 | 47.3459 | 6234 | 34 | 6240 | 39 | 16 | 41.0256 | |
| jpowers-varprowl | SNP | tv | map_l150_m1_e0 | homalt | 98.7251 | 98.1247 | 99.3330 | 75.8368 | 3872 | 74 | 3872 | 26 | 16 | 61.5385 | |
| jpowers-varprowl | SNP | tv | map_l150_m2_e0 | homalt | 98.7557 | 98.1631 | 99.3555 | 77.7336 | 4008 | 75 | 4008 | 26 | 16 | 61.5385 | |
| jpowers-varprowl | SNP | tv | map_l150_m2_e1 | homalt | 98.7711 | 98.1858 | 99.3635 | 77.7044 | 4059 | 75 | 4059 | 26 | 16 | 61.5385 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2568 | 98.6869 | 99.8334 | 39.3004 | 10221 | 136 | 10186 | 17 | 16 | 94.1176 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5721 | 99.2498 | 99.8965 | 56.0085 | 28048 | 212 | 27998 | 29 | 16 | 55.1724 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.9391 | 100.0000 | 92.1951 | 65.8902 | 188 | 0 | 189 | 16 | 16 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.0000 | 93.9024 | 82.7957 | 75.9690 | 77 | 5 | 77 | 16 | 16 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5601 | 99.6979 | 99.4226 | 63.8015 | 35312 | 107 | 35301 | 205 | 16 | 7.8049 | |
| jmaeng-gatk | SNP | ti | map_l150_m0_e0 | het | 76.1038 | 62.8605 | 96.4167 | 93.5560 | 3204 | 1893 | 3202 | 119 | 16 | 13.4454 | |
| jmaeng-gatk | SNP | tv | HG002complexvar | het | 99.6867 | 99.4221 | 99.9526 | 22.2557 | 149860 | 871 | 149782 | 71 | 16 | 22.5352 | |
| jmaeng-gatk | SNP | tv | map_l100_m1_e0 | * | 88.1452 | 80.4375 | 97.4866 | 80.6623 | 19708 | 4793 | 19704 | 508 | 16 | 3.1496 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e0 | * | 88.3689 | 80.8253 | 97.4657 | 81.7790 | 20233 | 4800 | 20229 | 526 | 16 | 3.0418 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e1 | * | 88.4662 | 80.9714 | 97.4899 | 81.7669 | 20472 | 4811 | 20468 | 527 | 16 | 3.0361 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 80.1588 | 67.7444 | 98.1441 | 38.0663 | 901 | 429 | 899 | 17 | 16 | 94.1176 | |
| jli-custom | SNP | * | map_l100_m1_e0 | homalt | 99.7923 | 99.6482 | 99.9369 | 57.0814 | 26908 | 95 | 26908 | 17 | 16 | 94.1176 | |
| jli-custom | SNP | * | map_l100_m2_e0 | homalt | 99.7944 | 99.6512 | 99.9381 | 59.7123 | 27427 | 96 | 27427 | 17 | 16 | 94.1176 | |
| jli-custom | SNP | * | map_l100_m2_e1 | homalt | 99.7946 | 99.6510 | 99.9387 | 59.6958 | 27699 | 97 | 27699 | 17 | 16 | 94.1176 | |
| jli-custom | SNP | ti | map_l250_m1_e0 | het | 97.6625 | 96.4286 | 98.9284 | 86.8086 | 2862 | 106 | 2862 | 31 | 16 | 51.6129 | |
| jli-custom | SNP | ti | map_l250_m2_e0 | het | 97.8393 | 96.7117 | 98.9934 | 87.4744 | 3147 | 107 | 3147 | 32 | 16 | 50.0000 | |
| jli-custom | SNP | ti | map_l250_m2_e1 | het | 97.8071 | 96.6657 | 98.9758 | 87.5900 | 3189 | 110 | 3189 | 33 | 16 | 48.4848 | |
| jmaeng-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.3401 | 86.1140 | 99.5366 | 37.1153 | 3293 | 531 | 3437 | 16 | 16 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.9960 | 99.3902 | 96.6403 | 62.2670 | 489 | 3 | 489 | 17 | 16 | 94.1176 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.4353 | 99.2278 | 93.7956 | 60.2322 | 257 | 2 | 257 | 17 | 16 | 94.1176 | |
| ckim-dragen | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8358 | 99.8591 | 99.8124 | 64.8592 | 27639 | 39 | 27673 | 52 | 16 | 30.7692 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.5405 | 99.5949 | 99.4862 | 63.6798 | 11063 | 45 | 11037 | 57 | 16 | 28.0702 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8986 | 96.7532 | 97.0443 | 67.8288 | 596 | 20 | 591 | 18 | 16 | 88.8889 | |
| ckim-gatk | SNP | tv | map_l100_m1_e0 | het | 91.3400 | 86.6511 | 96.5654 | 83.3110 | 13359 | 2058 | 13355 | 475 | 16 | 3.3684 | |
| ckim-gatk | SNP | tv | map_l100_m2_e0 | het | 91.4895 | 86.9494 | 96.5299 | 84.2447 | 13718 | 2059 | 13714 | 493 | 16 | 3.2454 | |
| ckim-gatk | SNP | tv | map_l100_m2_e1 | het | 91.5697 | 87.0686 | 96.5616 | 84.2465 | 13877 | 2061 | 13873 | 494 | 16 | 3.2389 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 81.9633 | 76.1261 | 88.7701 | 48.1994 | 169 | 53 | 166 | 21 | 16 | 76.1905 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 69.2913 | 80.0000 | 61.1111 | 70.0000 | 40 | 10 | 33 | 21 | 16 | 76.1905 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6637 | 96.7532 | 98.5915 | 61.0394 | 1192 | 40 | 1190 | 17 | 16 | 94.1176 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1772 | 98.9228 | 99.4328 | 67.8997 | 3857 | 42 | 3857 | 22 | 16 | 72.7273 | |
| ckim-dragen | SNP | * | map_l150_m0_e0 | homalt | 99.3015 | 99.0707 | 99.5334 | 70.2317 | 4051 | 38 | 4053 | 19 | 16 | 84.2105 | |
| ckim-dragen | SNP | * | map_l250_m2_e0 | homalt | 99.1424 | 98.9948 | 99.2905 | 83.9458 | 2659 | 27 | 2659 | 19 | 16 | 84.2105 | |
| ckim-dragen | SNP | * | map_l250_m2_e1 | het | 96.3314 | 96.9985 | 95.6733 | 91.4307 | 5106 | 158 | 5108 | 231 | 16 | 6.9264 | |
| ckim-dragen | SNP | * | map_l250_m2_e1 | homalt | 99.1340 | 98.9698 | 99.2986 | 84.0205 | 2690 | 28 | 2690 | 19 | 16 | 84.2105 | |
| ckim-dragen | SNP | ti | map_l125_m1_e0 | homalt | 99.5597 | 99.2757 | 99.8453 | 60.3228 | 10965 | 80 | 10970 | 17 | 16 | 94.1176 | |
| ckim-dragen | SNP | ti | map_l125_m2_e0 | homalt | 99.5541 | 99.2604 | 99.8495 | 63.2256 | 11274 | 84 | 11279 | 17 | 16 | 94.1176 | |
| ckim-dragen | SNP | ti | map_l125_m2_e1 | homalt | 99.5580 | 99.2669 | 99.8508 | 63.2612 | 11374 | 84 | 11379 | 17 | 16 | 94.1176 | |
| cchapple-custom | INDEL | * | map_l150_m2_e0 | * | 95.3298 | 96.2358 | 94.4406 | 89.8140 | 1355 | 53 | 1376 | 81 | 16 | 19.7531 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6497 | 97.9456 | 99.3640 | 46.2896 | 1621 | 34 | 2812 | 18 | 16 | 88.8889 | |
| ciseli-custom | INDEL | D16_PLUS | map_siren | homalt | 60.7595 | 70.5882 | 53.3333 | 89.9103 | 24 | 10 | 24 | 21 | 16 | 76.1905 | |
| ciseli-custom | INDEL | D6_15 | map_l150_m2_e0 | * | 54.0881 | 52.4390 | 55.8442 | 94.0769 | 43 | 39 | 43 | 34 | 16 | 47.0588 | |