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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71901-71950 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | D1_5 | map_siren | het | 92.9621 | 88.8889 | 97.4265 | 85.9785 | 2024 | 253 | 2120 | 56 | 32 | 57.1429 | |
| mlin-fermikit | SNP | tv | map_l150_m1_e0 | het | 53.4835 | 36.7982 | 97.8528 | 67.3388 | 2556 | 4390 | 2552 | 56 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | HG002compoundhet | hetalt | 77.8263 | 64.0760 | 99.0905 | 66.4524 | 6546 | 3670 | 6101 | 56 | 47 | 83.9286 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 77.0538 | 84.4720 | 70.8333 | 31.6726 | 136 | 25 | 136 | 56 | 35 | 62.5000 | |
| ltrigg-rtg1 | SNP | * | HG002compoundhet | * | 98.7318 | 97.7074 | 99.7779 | 38.3623 | 25230 | 592 | 25160 | 56 | 17 | 30.3571 | |
| jli-custom | SNP | * | map_l250_m2_e1 | het | 97.7120 | 96.5426 | 98.9101 | 87.1957 | 5082 | 182 | 5082 | 56 | 24 | 42.8571 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 60.0266 | 74.1071 | 50.4425 | 79.7491 | 83 | 29 | 57 | 56 | 18 | 32.1429 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 51.3219 | 83.3333 | 37.0787 | 89.6149 | 35 | 7 | 33 | 56 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 47.6190 | 83.3333 | 33.3333 | 88.8149 | 30 | 6 | 28 | 56 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | * | map_l250_m1_e0 | het | 85.3147 | 96.3158 | 76.5690 | 97.3834 | 183 | 7 | 183 | 56 | 10 | 17.8571 | |
| ghariani-varprowl | INDEL | D1_5 | map_l150_m0_e0 | het | 86.5934 | 97.5248 | 77.8656 | 94.0076 | 197 | 5 | 197 | 56 | 5 | 8.9286 | |
| gduggal-snapvard | INDEL | I1_5 | HG002complexvar | homalt | 92.5606 | 86.5333 | 99.4905 | 33.4524 | 11637 | 1811 | 10935 | 56 | 51 | 91.0714 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e0 | homalt | 98.0484 | 96.3703 | 99.7860 | 62.8472 | 26524 | 999 | 26107 | 56 | 43 | 76.7857 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e1 | homalt | 98.0418 | 96.3556 | 99.7880 | 62.8493 | 26783 | 1013 | 26357 | 56 | 43 | 76.7857 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.6335 | 98.6470 | 98.6200 | 49.6901 | 4010 | 55 | 4002 | 56 | 5 | 8.9286 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 43.5045 | 31.1688 | 72.0000 | 59.1837 | 144 | 318 | 144 | 56 | 49 | 87.5000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m2_e1 | * | 82.8676 | 78.1544 | 88.1857 | 95.5224 | 415 | 116 | 418 | 56 | 2 | 3.5714 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 47.4332 | 31.5939 | 95.1220 | 44.9136 | 1114 | 2412 | 1092 | 56 | 43 | 76.7857 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 47.4332 | 31.5939 | 95.1220 | 44.9136 | 1114 | 2412 | 1092 | 56 | 43 | 76.7857 | |
| ghariani-varprowl | SNP | tv | segdup | homalt | 99.0657 | 99.8456 | 98.2979 | 91.0501 | 3233 | 5 | 3234 | 56 | 29 | 51.7857 | |
| gduggal-bwafb | SNP | tv | HG002complexvar | homalt | 99.8685 | 99.7960 | 99.9410 | 22.9952 | 94917 | 194 | 94931 | 56 | 49 | 87.5000 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 80.0548 | 89.0909 | 72.6829 | 91.6052 | 147 | 18 | 149 | 56 | 9 | 16.0714 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002compoundhet | homalt | 37.8738 | 75.0000 | 25.3333 | 81.1558 | 18 | 6 | 19 | 56 | 53 | 94.6429 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 87.1382 | 78.3947 | 98.0769 | 64.9494 | 2852 | 786 | 2856 | 56 | 50 | 89.2857 | |
| eyeh-varpipe | SNP | tv | map_l250_m1_e0 | * | 98.7000 | 99.5089 | 97.9042 | 90.2532 | 2634 | 13 | 2616 | 56 | 6 | 10.7143 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 95.1577 | 91.3256 | 99.3255 | 38.6854 | 2990 | 284 | 8246 | 56 | 45 | 80.3571 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 85.3531 | 80.8576 | 90.3780 | 61.9856 | 528 | 125 | 526 | 56 | 54 | 96.4286 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 38.3408 | 90.4762 | 24.3243 | 23.7113 | 19 | 2 | 18 | 56 | 55 | 98.2143 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 70.9063 | 57.6993 | 91.9540 | 93.4617 | 637 | 467 | 640 | 56 | 12 | 21.4286 | |
| rpoplin-dv42 | SNP | * | map_l100_m1_e0 | homalt | 99.6291 | 99.4667 | 99.7919 | 61.1512 | 26859 | 144 | 26860 | 56 | 52 | 92.8571 | |
| rpoplin-dv42 | SNP | ti | map_l250_m2_e0 | * | 98.5577 | 98.2428 | 98.8746 | 88.2672 | 4920 | 88 | 4920 | 56 | 37 | 66.0714 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7238 | 99.6461 | 99.8015 | 61.5050 | 28160 | 100 | 28162 | 56 | 44 | 78.5714 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1995 | 96.8094 | 99.6302 | 71.4676 | 15080 | 497 | 15087 | 56 | 47 | 83.9286 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6737 | 94.1848 | 99.2978 | 59.9146 | 7920 | 489 | 7919 | 56 | 51 | 91.0714 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.3335 | 96.2182 | 96.4490 | 61.4990 | 1552 | 61 | 1521 | 56 | 30 | 53.5714 | |
| egarrison-hhga | SNP | * | map_l100_m0_e0 | het | 99.1151 | 98.5051 | 99.7326 | 69.3594 | 20888 | 317 | 20889 | 56 | 24 | 42.8571 | |
| egarrison-hhga | SNP | tv | HG002complexvar | homalt | 99.8748 | 99.8086 | 99.9410 | 22.7459 | 94929 | 182 | 94938 | 56 | 46 | 82.1429 | |
| ckim-isaac | SNP | * | HG002complexvar | homalt | 95.6391 | 91.6604 | 99.9788 | 17.3239 | 264509 | 24066 | 264563 | 56 | 45 | 80.3571 | |
| ckim-vqsr | INDEL | * | map_l125_m1_e0 | * | 96.8785 | 96.4404 | 97.3206 | 91.1117 | 2032 | 75 | 2034 | 56 | 8 | 14.2857 | |
| dgrover-gatk | INDEL | * | HG002compoundhet | hetalt | 96.9439 | 94.2772 | 99.7659 | 51.7927 | 23739 | 1441 | 23863 | 56 | 55 | 98.2143 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.6796 | 92.5249 | 90.8497 | 49.7124 | 557 | 45 | 556 | 56 | 25 | 44.6429 | |
| anovak-vg | INDEL | I1_5 | map_l250_m1_e0 | * | 58.7189 | 62.2642 | 55.5556 | 96.4296 | 66 | 40 | 70 | 56 | 31 | 55.3571 | |
| anovak-vg | SNP | ti | map_l125_m2_e0 | homalt | 89.9353 | 82.1183 | 99.3971 | 67.3107 | 9327 | 2031 | 9233 | 56 | 51 | 91.0714 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 90.9054 | 87.1795 | 94.9640 | 88.1323 | 1054 | 155 | 1056 | 56 | 6 | 10.7143 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.8763 | 98.9362 | 93.0000 | 62.1928 | 744 | 8 | 744 | 56 | 55 | 98.2143 | |
| anovak-vg | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 20.0000 | 85.4167 | 0 | 0 | 14 | 56 | 3 | 5.3571 | |
| anovak-vg | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 16.4179 | 84.3091 | 0 | 0 | 11 | 56 | 3 | 5.3571 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 12.8639 | 7.7236 | 38.4615 | 59.1928 | 19 | 227 | 35 | 56 | 6 | 10.7143 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002complexvar | * | 99.6940 | 99.5564 | 99.8319 | 56.9171 | 33215 | 148 | 33263 | 56 | 45 | 80.3571 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002compoundhet | het | 84.2722 | 97.1154 | 74.4292 | 84.1189 | 202 | 6 | 163 | 56 | 55 | 98.2143 | |