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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13801-13850 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | SNP | ti | map_l150_m2_e1 | * | 99.0741 | 98.3690 | 99.7895 | 74.1500 | 20385 | 338 | 20385 | 43 | 23 | 53.4884 | |
| qzeng-custom | INDEL | * | map_siren | homalt | 90.9652 | 86.4030 | 96.0361 | 77.3592 | 2294 | 361 | 2447 | 101 | 23 | 22.7723 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m1_e0 | het | 75.2952 | 75.3968 | 75.1938 | 79.7488 | 95 | 31 | 97 | 32 | 23 | 71.8750 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m2_e0 | het | 76.2275 | 76.3359 | 76.1194 | 81.1001 | 100 | 31 | 102 | 32 | 23 | 71.8750 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 67.2776 | 57.7670 | 80.5369 | 88.2492 | 119 | 87 | 120 | 29 | 23 | 79.3103 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 84.8330 | 85.0000 | 84.6667 | 87.5519 | 136 | 24 | 127 | 23 | 23 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 84.3860 | 83.9286 | 84.8485 | 77.2727 | 141 | 27 | 140 | 25 | 23 | 92.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m1_e0 | homalt | 64.8485 | 54.0404 | 81.0606 | 80.8696 | 107 | 91 | 107 | 25 | 23 | 92.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e0 | homalt | 64.6707 | 53.7313 | 81.2030 | 84.0528 | 108 | 93 | 108 | 25 | 23 | 92.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e1 | homalt | 65.2941 | 54.4118 | 81.6176 | 84.1676 | 111 | 93 | 111 | 25 | 23 | 92.0000 | |
| mlin-fermikit | SNP | * | HG002complexvar | het | 98.1632 | 96.4217 | 99.9688 | 17.2653 | 448843 | 16657 | 448744 | 140 | 23 | 16.4286 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.1375 | 97.9385 | 98.3373 | 54.7451 | 2898 | 61 | 2898 | 49 | 23 | 46.9388 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5545 | 99.7340 | 97.4026 | 53.7630 | 1125 | 3 | 1125 | 30 | 23 | 76.6667 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4473 | 99.1113 | 99.7856 | 56.2027 | 16283 | 146 | 16290 | 35 | 23 | 65.7143 | |
| ndellapenna-hhga | INDEL | * | map_siren | homalt | 98.6802 | 98.5687 | 98.7920 | 79.0989 | 2617 | 38 | 2617 | 32 | 23 | 71.8750 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.9898 | 94.4882 | 95.4967 | 65.8834 | 720 | 42 | 721 | 34 | 23 | 67.6471 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.3013 | 96.9520 | 97.6532 | 73.8359 | 1495 | 47 | 1498 | 36 | 23 | 63.8889 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002complexvar | hetalt | 66.5397 | 51.3327 | 94.5493 | 59.4388 | 520 | 493 | 451 | 26 | 23 | 88.4615 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.1814 | 73.6559 | 85.6031 | 65.5957 | 137 | 49 | 220 | 37 | 23 | 62.1622 | |
| qzeng-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5290 | 99.4853 | 99.5728 | 52.8503 | 10050 | 52 | 10023 | 43 | 23 | 53.4884 | |
| qzeng-custom | SNP | tv | map_l125_m0_e0 | homalt | 80.6373 | 68.2575 | 98.5026 | 73.5992 | 1516 | 705 | 1513 | 23 | 23 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4030 | 99.1198 | 99.6877 | 55.5385 | 14640 | 130 | 15005 | 47 | 23 | 48.9362 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m0_e0 | * | 86.8238 | 79.0267 | 96.3280 | 91.0593 | 682 | 181 | 787 | 30 | 23 | 76.6667 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m1_e0 | * | 84.3978 | 75.4533 | 95.7480 | 93.2533 | 541 | 176 | 608 | 27 | 23 | 85.1852 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e0 | * | 85.0239 | 76.2779 | 96.0352 | 93.3503 | 582 | 181 | 654 | 27 | 23 | 85.1852 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e1 | * | 85.2592 | 76.6067 | 96.1151 | 93.3295 | 596 | 182 | 668 | 27 | 23 | 85.1852 | |
| ltrigg-rtg2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3249 | 99.5483 | 99.1025 | 56.2469 | 35259 | 160 | 35334 | 320 | 23 | 7.1875 | |
| ckim-gatk | SNP | ti | HG002complexvar | homalt | 99.3341 | 98.6902 | 99.9864 | 18.4846 | 190929 | 2534 | 190919 | 26 | 23 | 88.4615 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.9363 | 99.2849 | 98.5900 | 75.9853 | 19439 | 140 | 19439 | 278 | 23 | 8.2734 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.9363 | 99.2849 | 98.5900 | 75.9853 | 19439 | 140 | 19439 | 278 | 23 | 8.2734 | |
| ckim-gatk | SNP | ti | map_l125_m0_e0 | * | 77.0822 | 63.5950 | 97.8298 | 88.5344 | 8116 | 4646 | 8114 | 180 | 23 | 12.7778 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 81.5850 | 69.5556 | 98.6454 | 38.9545 | 1894 | 829 | 2039 | 28 | 23 | 82.1429 | |
| ckim-isaac | INDEL | * | segdup | * | 96.6725 | 94.9531 | 98.4553 | 92.8290 | 2427 | 129 | 2422 | 38 | 23 | 60.5263 | |
| ckim-dragen | SNP | ti | map_siren | homalt | 99.7132 | 99.4936 | 99.9338 | 47.4447 | 37724 | 192 | 37726 | 25 | 23 | 92.0000 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m2_e0 | het | 75.0226 | 68.7173 | 82.6019 | 92.3012 | 525 | 239 | 527 | 111 | 23 | 20.7207 | |
| ciseli-custom | INDEL | D6_15 | map_l100_m0_e0 | * | 52.0249 | 48.5437 | 56.0440 | 91.5428 | 50 | 53 | 51 | 40 | 23 | 57.5000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 25.7093 | 16.0550 | 64.4860 | 89.9813 | 70 | 366 | 69 | 38 | 23 | 60.5263 | |
| ckim-dragen | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7964 | 99.8426 | 99.7503 | 54.7629 | 27915 | 44 | 27963 | 70 | 23 | 32.8571 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.9475 | 99.4987 | 94.5238 | 65.8537 | 397 | 2 | 397 | 23 | 23 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.0809 | 94.7303 | 99.5510 | 41.4525 | 1528 | 85 | 5987 | 27 | 23 | 85.1852 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6230 | 96.5771 | 98.6919 | 84.5324 | 2624 | 93 | 2716 | 36 | 23 | 63.8889 | |
| cchapple-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0130 | 99.6869 | 98.3480 | 64.2091 | 17513 | 55 | 17622 | 296 | 23 | 7.7703 | |
| cchapple-custom | INDEL | * | map_l125_m1_e0 | * | 95.7860 | 96.5828 | 95.0023 | 86.4180 | 2035 | 72 | 2072 | 109 | 23 | 21.1009 | |
| cchapple-custom | INDEL | * | map_l125_m2_e0 | * | 95.8417 | 96.5847 | 95.1101 | 87.3742 | 2121 | 75 | 2159 | 111 | 23 | 20.7207 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7162 | 98.8842 | 96.5753 | 51.3333 | 709 | 8 | 705 | 25 | 23 | 92.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.8694 | 94.5122 | 95.2294 | 59.8083 | 155 | 9 | 519 | 26 | 23 | 88.4615 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1157 | 94.7910 | 99.5574 | 48.6452 | 5623 | 309 | 5623 | 25 | 23 | 92.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7294 | 97.9480 | 99.5234 | 39.3399 | 5012 | 105 | 5012 | 24 | 23 | 95.8333 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 87.2466 | 79.7847 | 96.2482 | 67.1252 | 667 | 169 | 667 | 26 | 23 | 88.4615 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | het | 97.3404 | 97.2112 | 97.4700 | 92.1200 | 1464 | 42 | 1464 | 38 | 23 | 60.5263 | |