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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18551-18600 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.6016 | 96.7192 | 96.4844 | 63.4807 | 737 | 25 | 741 | 27 | 4 | 14.8148 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.2208 | 95.9411 | 98.5350 | 66.0589 | 1891 | 80 | 1816 | 27 | 9 | 33.3333 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.2208 | 95.9411 | 98.5350 | 66.0589 | 1891 | 80 | 1816 | 27 | 9 | 33.3333 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5424 | 99.7679 | 99.3178 | 59.4259 | 3869 | 9 | 3931 | 27 | 1 | 3.7037 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.3488 | 99.7594 | 98.9416 | 60.6388 | 2488 | 6 | 2524 | 27 | 1 | 3.7037 | |
| ndellapenna-hhga | INDEL | I1_5 | HG002complexvar | hetalt | 96.3808 | 94.4380 | 98.4052 | 70.6127 | 1630 | 96 | 1666 | 27 | 26 | 96.2963 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.3687 | 96.7718 | 97.9730 | 70.6802 | 1319 | 44 | 1305 | 27 | 14 | 51.8519 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 94.0865 | 90.1750 | 98.3527 | 42.9913 | 1597 | 174 | 1612 | 27 | 24 | 88.8889 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4741 | 99.3855 | 99.5628 | 54.8644 | 6146 | 38 | 6148 | 27 | 9 | 33.3333 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 95.1002 | 96.1712 | 94.0529 | 81.2552 | 427 | 17 | 427 | 27 | 22 | 81.4815 | |
| qzeng-custom | INDEL | * | segdup | homalt | 98.3551 | 99.4792 | 97.2561 | 92.3549 | 955 | 5 | 957 | 27 | 15 | 55.5556 | |
| qzeng-custom | INDEL | C16_PLUS | HG002complexvar | homalt | 0.0000 | 0.0000 | 18.1818 | 81.8681 | 0 | 0 | 6 | 27 | 0 | 0.0000 | |
| qzeng-custom | INDEL | C16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 0.0000 | 0.0000 | 71.2766 | 0 | 0 | 0 | 27 | 0 | 0.0000 | ||
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.1044 | 93.8977 | 98.4174 | 74.4802 | 1708 | 111 | 1679 | 27 | 14 | 51.8519 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.1044 | 93.8977 | 98.4174 | 74.4802 | 1708 | 111 | 1679 | 27 | 14 | 51.8519 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.2807 | 95.0784 | 99.5875 | 32.3304 | 6491 | 336 | 6518 | 27 | 27 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_siren | * | 98.4561 | 97.7047 | 99.2192 | 76.7013 | 3448 | 81 | 3431 | 27 | 5 | 18.5185 | |
| jli-custom | SNP | * | func_cds | * | 99.9036 | 99.9559 | 99.8514 | 23.3699 | 18142 | 8 | 18142 | 27 | 0 | 0.0000 | |
| jli-custom | SNP | * | func_cds | het | 99.8568 | 99.9552 | 99.7586 | 24.6835 | 11156 | 5 | 11156 | 27 | 0 | 0.0000 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.7850 | 99.0930 | 98.4789 | 88.6741 | 1748 | 16 | 1748 | 27 | 12 | 44.4444 | |
| jli-custom | SNP | tv | HG002compoundhet | het | 99.4759 | 99.5292 | 99.4226 | 55.0428 | 4651 | 22 | 4649 | 27 | 10 | 37.0370 | |
| jli-custom | SNP | tv | map_l250_m2_e0 | * | 98.1086 | 97.1895 | 99.0453 | 86.0929 | 2801 | 81 | 2801 | 27 | 12 | 44.4444 | |
| jli-custom | SNP | tv | map_l250_m2_e1 | * | 98.1308 | 97.2222 | 99.0566 | 86.1913 | 2835 | 81 | 2835 | 27 | 12 | 44.4444 | |
| ltrigg-rtg1 | SNP | * | map_l100_m1_e0 | homalt | 99.8221 | 99.7445 | 99.8999 | 60.0030 | 26934 | 69 | 26933 | 27 | 24 | 88.8889 | |
| ltrigg-rtg1 | SNP | ti | map_siren | homalt | 99.8522 | 99.7758 | 99.9287 | 51.0640 | 37831 | 85 | 37826 | 27 | 26 | 96.2963 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m0_e0 | het | 98.3382 | 97.0922 | 99.6165 | 55.2134 | 7012 | 210 | 7013 | 27 | 4 | 14.8148 | |
| ltrigg-rtg1 | SNP | tv | map_l150_m2_e0 | * | 98.9030 | 98.0625 | 99.7581 | 68.2059 | 11135 | 220 | 11134 | 27 | 6 | 22.2222 | |
| ltrigg-rtg1 | SNP | tv | map_l150_m2_e1 | * | 98.9128 | 98.0786 | 99.7613 | 68.2500 | 11281 | 221 | 11283 | 27 | 6 | 22.2222 | |
| jli-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7437 | 95.5319 | 97.9866 | 71.7029 | 1347 | 63 | 1314 | 27 | 20 | 74.0741 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 81.9277 | 95.7746 | 71.5789 | 51.0309 | 68 | 3 | 68 | 27 | 27 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.8525 | 100.0000 | 92.0354 | 67.8977 | 311 | 0 | 312 | 27 | 27 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 54.4398 | 38.5882 | 92.3944 | 62.6316 | 328 | 522 | 328 | 27 | 21 | 77.7778 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4208 | 98.5443 | 98.2976 | 60.8492 | 1557 | 23 | 1559 | 27 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.6259 | 94.6129 | 98.7264 | 59.9168 | 2090 | 119 | 2093 | 27 | 24 | 88.8889 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 66.4762 | 60.4839 | 73.7864 | 99.9217 | 75 | 49 | 76 | 27 | 19 | 70.3704 | |
| jpowers-varprowl | INDEL | * | map_l150_m0_e0 | het | 93.0233 | 93.8416 | 92.2190 | 93.9442 | 320 | 21 | 320 | 27 | 18 | 66.6667 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 69.3125 | 68.9655 | 69.6629 | 88.8471 | 60 | 27 | 62 | 27 | 20 | 74.0741 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 76.2389 | 92.3077 | 64.9351 | 86.6087 | 48 | 4 | 50 | 27 | 20 | 74.0741 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.5467 | 99.6973 | 99.3965 | 52.0107 | 4282 | 13 | 4282 | 26 | 1 | 3.8462 | |
| jli-custom | SNP | tv | map_l250_m1_e0 | * | 97.9966 | 97.0155 | 98.9977 | 85.0101 | 2568 | 79 | 2568 | 26 | 11 | 42.3077 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.3148 | 95.2850 | 99.4329 | 24.6012 | 4547 | 225 | 4559 | 26 | 26 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 97.7337 | 98.5542 | 96.9267 | 89.8768 | 818 | 12 | 820 | 26 | 3 | 11.5385 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 96.5214 | 98.0315 | 95.0570 | 92.5273 | 498 | 10 | 500 | 26 | 1 | 3.8462 | |
| jmaeng-gatk | SNP | ti | HG002compoundhet | * | 99.3792 | 98.9129 | 99.8498 | 36.3432 | 17288 | 190 | 17288 | 26 | 22 | 84.6154 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m1_e0 | * | 94.3862 | 92.1687 | 96.7130 | 85.8775 | 765 | 65 | 765 | 26 | 19 | 73.0769 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m2_e1 | het | 93.6255 | 92.5197 | 94.7581 | 89.8693 | 470 | 38 | 470 | 26 | 18 | 69.2308 | |
| 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 | * | map_l100_m2_e0 | * | 97.3361 | 95.4779 | 99.2680 | 80.2721 | 3526 | 167 | 3526 | 26 | 7 | 26.9231 | |