PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
32951-33000 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 98.0498 | 97.4110 | 98.6971 | 91.7517 | 301 | 8 | 303 | 4 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m2_e1 | het | 98.0992 | 97.4763 | 98.7302 | 91.7883 | 309 | 8 | 311 | 4 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I1_5 | segdup | * | 99.2921 | 99.2446 | 99.3396 | 94.6513 | 1051 | 8 | 1053 | 7 | 2 | 28.5714 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2789 | 94.7020 | 100.0000 | 48.4536 | 143 | 8 | 150 | 0 | 0 | ||
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.8437 | 99.8912 | 99.7961 | 33.9853 | 7347 | 8 | 7343 | 15 | 3 | 20.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.4856 | 99.3676 | 99.6038 | 88.3504 | 1257 | 8 | 1257 | 5 | 5 | 100.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6764 | 99.7409 | 99.6119 | 69.3315 | 3080 | 8 | 3080 | 12 | 9 | 75.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7731 | 99.5473 | 100.0000 | 61.3407 | 1759 | 8 | 1759 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 56.0000 | 84.0000 | 42.0000 | 67.7419 | 42 | 8 | 42 | 58 | 51 | 87.9310 | |
| egarrison-hhga | INDEL | * | map_l100_m0_e0 | homalt | 98.5251 | 98.4283 | 98.6220 | 83.5599 | 501 | 8 | 501 | 7 | 4 | 57.1429 | |
| egarrison-hhga | INDEL | * | map_l125_m1_e0 | hetalt | 88.8889 | 80.0000 | 100.0000 | 93.5841 | 32 | 8 | 29 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | map_l125_m2_e0 | hetalt | 89.4737 | 80.9524 | 100.0000 | 94.1288 | 34 | 8 | 31 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | map_l150_m1_e0 | homalt | 98.3749 | 98.2684 | 98.4816 | 88.2067 | 454 | 8 | 454 | 7 | 4 | 57.1429 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e0 | homalt | 98.4391 | 98.3368 | 98.5417 | 89.3000 | 473 | 8 | 473 | 7 | 4 | 57.1429 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e1 | homalt | 98.4741 | 98.3740 | 98.5743 | 89.3400 | 484 | 8 | 484 | 7 | 4 | 57.1429 | |
| ckim-vqsr | SNP | ti | map_l125_m0_e0 | hetalt | 0.0000 | 100.0000 | 0 | 8 | 0 | 0 | 0 | ||||
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6989 | 99.4660 | 99.9329 | 79.6894 | 1490 | 8 | 1490 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 98.0429 | 96.5665 | 99.5652 | 76.4344 | 225 | 8 | 229 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8527 | 99.9044 | 97.8230 | 55.8586 | 8358 | 8 | 8358 | 186 | 184 | 98.9247 | |
| dgrover-gatk | INDEL | * | map_l100_m0_e0 | homalt | 98.1391 | 98.4283 | 97.8516 | 85.3798 | 501 | 8 | 501 | 11 | 5 | 45.4545 | |
| dgrover-gatk | INDEL | * | map_l125_m1_e0 | homalt | 98.9747 | 98.9071 | 99.0424 | 86.2723 | 724 | 8 | 724 | 7 | 4 | 57.1429 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | homalt | 98.8867 | 98.9515 | 98.8220 | 87.0968 | 755 | 8 | 755 | 9 | 4 | 44.4444 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | homalt | 98.9025 | 98.9664 | 98.8387 | 87.1943 | 766 | 8 | 766 | 9 | 4 | 44.4444 | |
| dgrover-gatk | INDEL | * | map_l150_m1_e0 | homalt | 98.4816 | 98.2684 | 98.6957 | 88.7778 | 454 | 8 | 454 | 6 | 3 | 50.0000 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e0 | homalt | 98.5417 | 98.3368 | 98.7474 | 89.6834 | 473 | 8 | 473 | 6 | 3 | 50.0000 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e1 | homalt | 98.4741 | 98.3740 | 98.5743 | 89.6632 | 484 | 8 | 484 | 7 | 4 | 57.1429 | |
| dgrover-gatk | INDEL | * | map_l250_m1_e0 | het | 95.2880 | 95.7895 | 94.7917 | 96.7022 | 182 | 8 | 182 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e0 | het | 95.7346 | 96.1905 | 95.2830 | 96.8183 | 202 | 8 | 202 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e1 | het | 95.7547 | 96.2085 | 95.3052 | 96.8873 | 203 | 8 | 203 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | segdup | hetalt | 96.8254 | 93.8462 | 100.0000 | 94.7679 | 122 | 8 | 124 | 0 | 0 | ||
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.0391 | 99.4096 | 96.7059 | 82.8744 | 1347 | 8 | 1233 | 42 | 28 | 66.6667 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | * | 86.8132 | 90.8046 | 83.1579 | 94.5371 | 79 | 8 | 79 | 16 | 4 | 25.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m2_e0 | * | 86.7725 | 91.1111 | 82.8283 | 95.1111 | 82 | 8 | 82 | 17 | 4 | 23.5294 | |
| dgrover-gatk | INDEL | D1_5 | HG002complexvar | homalt | 99.8963 | 99.9245 | 99.8680 | 60.1555 | 10590 | 8 | 10595 | 14 | 12 | 85.7143 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.9381 | 98.9362 | 93.1164 | 62.2579 | 744 | 8 | 744 | 55 | 55 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e1 | het | 98.0028 | 98.4674 | 97.5425 | 90.6603 | 514 | 8 | 516 | 13 | 2 | 15.3846 | |
| dgrover-gatk | INDEL | D6_15 | * | homalt | 98.8732 | 99.8735 | 97.8928 | 55.5601 | 6318 | 8 | 6318 | 136 | 134 | 98.5294 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m1_e0 | * | 98.3218 | 98.4190 | 98.2249 | 89.3800 | 498 | 8 | 498 | 9 | 2 | 22.2222 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m2_e0 | * | 98.3638 | 98.4586 | 98.2692 | 90.4535 | 511 | 8 | 511 | 9 | 2 | 22.2222 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m2_e1 | * | 98.4008 | 98.4934 | 98.3083 | 90.5304 | 523 | 8 | 523 | 9 | 2 | 22.2222 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 91.3793 | 86.8852 | 96.3636 | 58.3333 | 53 | 8 | 53 | 2 | 1 | 50.0000 | |
| egarrison-hhga | SNP | * | map_l250_m0_e0 | homalt | 99.1221 | 98.7281 | 99.5192 | 91.2532 | 621 | 8 | 621 | 3 | 3 | 100.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.5783 | 99.7296 | 99.4274 | 58.3882 | 2951 | 8 | 2952 | 17 | 2 | 11.7647 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 87.0968 | 77.1429 | 100.0000 | 90.2174 | 27 | 8 | 27 | 0 | 0 | ||
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.6616 | 98.4733 | 98.8506 | 65.3846 | 516 | 8 | 516 | 6 | 5 | 83.3333 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4951 | 99.4232 | 99.5671 | 63.4301 | 1379 | 8 | 1380 | 6 | 2 | 33.3333 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 86.0759 | 80.9524 | 91.8919 | 88.7195 | 34 | 8 | 34 | 3 | 2 | 66.6667 | |
| egarrison-hhga | SNP | tv | map_l250_m1_e0 | homalt | 99.4138 | 99.0654 | 99.7647 | 86.4065 | 848 | 8 | 848 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e0 | homalt | 99.4647 | 99.1462 | 99.7852 | 87.5551 | 929 | 8 | 929 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e1 | homalt | 99.4698 | 99.1543 | 99.7872 | 87.6462 | 938 | 8 | 938 | 2 | 2 | 100.0000 | |