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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68451-68500 / 86044 show all | |||||||||||||||
| gduggal-snapplat | SNP | tv | map_l250_m1_e0 | het | 85.2855 | 81.0856 | 89.9441 | 94.8591 | 1449 | 338 | 1449 | 162 | 67 | 41.3580 | |
| gduggal-bwafb | SNP | * | map_l250_m0_e0 | het | 96.5356 | 96.2151 | 96.8583 | 93.6158 | 1449 | 57 | 1449 | 47 | 13 | 27.6596 | |
| hfeng-pmm1 | INDEL | * | segdup | het | 98.8075 | 98.9086 | 98.7066 | 94.4130 | 1450 | 16 | 1450 | 19 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | * | segdup | het | 98.9768 | 98.9768 | 98.9768 | 94.9944 | 1451 | 15 | 1451 | 15 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.9226 | 92.4365 | 89.4575 | 60.7169 | 1491 | 122 | 1451 | 171 | 123 | 71.9298 | |
| jmaeng-gatk | INDEL | * | segdup | het | 94.5277 | 98.9768 | 90.4613 | 96.5263 | 1451 | 15 | 1451 | 153 | 2 | 1.3072 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.6447 | 95.8388 | 99.5199 | 88.8259 | 1451 | 63 | 1451 | 7 | 7 | 100.0000 | |
| ckim-dragen | INDEL | * | segdup | het | 95.8400 | 99.3861 | 92.5383 | 95.9567 | 1457 | 9 | 1451 | 117 | 2 | 1.7094 | |
| mlin-fermikit | INDEL | * | map_l100_m2_e0 | het | 74.8173 | 62.7655 | 92.5973 | 79.8974 | 1448 | 859 | 1451 | 116 | 68 | 58.6207 | |
| egarrison-hhga | INDEL | * | segdup | het | 97.9069 | 98.6357 | 97.1888 | 94.2947 | 1446 | 20 | 1452 | 42 | 30 | 71.4286 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 81.6460 | 74.6599 | 90.0744 | 85.4526 | 1317 | 447 | 1452 | 160 | 15 | 9.3750 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 71.3875 | 89.5226 | 59.3622 | 63.3723 | 1444 | 169 | 1452 | 994 | 947 | 95.2716 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 90.6327 | 87.6737 | 93.7984 | 45.3197 | 1451 | 204 | 1452 | 96 | 90 | 93.7500 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 73.6158 | 59.0525 | 97.7135 | 42.8517 | 1608 | 1115 | 1453 | 34 | 29 | 85.2941 | |
| hfeng-pmm3 | INDEL | * | segdup | het | 99.3844 | 99.1132 | 99.6571 | 94.2790 | 1453 | 13 | 1453 | 5 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | * | segdup | het | 98.8084 | 98.8404 | 98.7763 | 94.3566 | 1449 | 17 | 1453 | 18 | 17 | 94.4444 | |
| ckim-isaac | INDEL | I1_5 | map_siren | het | 91.7548 | 86.3772 | 97.8466 | 80.2288 | 1452 | 229 | 1454 | 32 | 7 | 21.8750 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4732 | 97.1869 | 99.7941 | 31.3060 | 1451 | 42 | 1454 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.5454 | 94.9673 | 98.1769 | 85.0222 | 1453 | 77 | 1454 | 27 | 18 | 66.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.5454 | 94.9673 | 98.1769 | 85.0222 | 1453 | 77 | 1454 | 27 | 18 | 66.6667 | |
| ndellapenna-hhga | INDEL | * | segdup | het | 97.9748 | 98.6357 | 97.3226 | 94.1248 | 1446 | 20 | 1454 | 40 | 27 | 67.5000 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7261 | 99.8636 | 99.5890 | 49.1643 | 1464 | 2 | 1454 | 6 | 3 | 50.0000 | |
| ckim-gatk | INDEL | * | segdup | het | 96.8043 | 99.1814 | 94.5384 | 96.5594 | 1454 | 12 | 1454 | 84 | 1 | 1.1905 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4732 | 97.1869 | 99.7941 | 31.3060 | 1451 | 42 | 1454 | 3 | 3 | 100.0000 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.5044 | 99.5907 | 91.7402 | 55.4244 | 1460 | 6 | 1455 | 131 | 24 | 18.3206 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 70.5551 | 95.3826 | 55.9831 | 73.4742 | 1446 | 70 | 1455 | 1144 | 27 | 2.3601 | |
| dgrover-gatk | INDEL | * | segdup | het | 99.0133 | 99.2497 | 98.7780 | 95.2951 | 1455 | 11 | 1455 | 18 | 2 | 11.1111 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.2012 | 82.9480 | 91.9141 | 36.2721 | 1435 | 295 | 1455 | 128 | 122 | 95.3125 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 45.4140 | 30.7174 | 87.0736 | 43.4900 | 1460 | 3293 | 1455 | 216 | 197 | 91.2037 | |
| bgallagher-sentieon | INDEL | * | segdup | het | 98.8787 | 99.2497 | 98.5105 | 95.1038 | 1455 | 11 | 1455 | 22 | 2 | 9.0909 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 42.8527 | 36.9227 | 51.0519 | 66.2725 | 1471 | 2513 | 1456 | 1396 | 1253 | 89.7564 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.6580 | 99.3861 | 99.9314 | 49.5848 | 1457 | 9 | 1456 | 1 | 0 | 0.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.5421 | 97.3208 | 99.7944 | 32.2970 | 1453 | 40 | 1456 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002complexvar | * | 95.0986 | 92.0876 | 98.3131 | 57.3034 | 1513 | 130 | 1457 | 25 | 19 | 76.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0184 | 98.5852 | 97.4582 | 45.8333 | 1742 | 25 | 1457 | 38 | 11 | 28.9474 | |
| gduggal-snapvard | INDEL | * | map_l100_m0_e0 | het | 83.1200 | 94.8090 | 73.9970 | 89.3957 | 968 | 53 | 1457 | 512 | 171 | 33.3984 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 45.3666 | 30.7174 | 86.7262 | 43.9252 | 1460 | 3293 | 1457 | 223 | 197 | 88.3408 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.2641 | 99.2497 | 95.3564 | 60.4398 | 1455 | 11 | 1458 | 71 | 8 | 11.2676 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 41.7793 | 36.0397 | 49.6933 | 42.7847 | 1416 | 2513 | 1458 | 1476 | 1368 | 92.6829 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.6114 | 90.7236 | 98.8475 | 35.5050 | 1467 | 150 | 1458 | 17 | 17 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 41.4960 | 66.6208 | 30.1322 | 55.6999 | 1451 | 727 | 1459 | 3383 | 3363 | 99.4088 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7607 | 99.5225 | 100.0000 | 43.1189 | 1459 | 7 | 1459 | 0 | 0 | ||
| hfeng-pmm2 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.8866 | 96.2401 | 99.5904 | 67.7099 | 1459 | 57 | 1459 | 6 | 1 | 16.6667 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7607 | 99.5225 | 100.0000 | 46.7518 | 1459 | 7 | 1459 | 0 | 0 | ||
| mlin-fermikit | SNP | * | map_l250_m2_e0 | het | 43.6369 | 28.0901 | 97.7227 | 83.2153 | 1459 | 3735 | 1459 | 34 | 1 | 2.9412 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e1 | * | 81.9397 | 72.4014 | 94.3726 | 87.2379 | 1010 | 385 | 1459 | 87 | 16 | 18.3908 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.9762 | 95.3595 | 98.6486 | 84.3187 | 1459 | 71 | 1460 | 20 | 10 | 50.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.9762 | 95.3595 | 98.6486 | 84.3187 | 1459 | 71 | 1460 | 20 | 10 | 50.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |