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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56351-56400 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | * | HG002complexvar | hetalt | 97.8723 | 96.4516 | 99.3355 | 40.5138 | 299 | 11 | 299 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8239 | 99.7293 | 99.9186 | 58.6595 | 11054 | 30 | 11050 | 9 | 2 | 22.2222 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3937 | 99.6425 | 99.1462 | 42.0410 | 18118 | 65 | 18115 | 156 | 2 | 1.2821 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6967 | 99.7400 | 99.6534 | 39.6128 | 4604 | 12 | 4600 | 16 | 2 | 12.5000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7805 | 99.6348 | 99.9267 | 31.1475 | 2728 | 10 | 2728 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m0_e0 | homalt | 69.6311 | 53.4267 | 99.9443 | 78.9757 | 3586 | 3126 | 3586 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m0_e0 | homalt | 65.4719 | 48.6916 | 99.8996 | 84.7432 | 1991 | 2098 | 1991 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m1_e0 | homalt | 71.8022 | 56.0188 | 99.9683 | 79.3360 | 6315 | 4958 | 6315 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e0 | homalt | 72.7253 | 57.1502 | 99.9701 | 80.8789 | 6686 | 5013 | 6686 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e1 | homalt | 72.8475 | 57.3011 | 99.9705 | 80.8330 | 6777 | 5050 | 6777 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m0_e0 | het | 63.5159 | 47.7424 | 94.8549 | 98.4462 | 719 | 787 | 719 | 39 | 2 | 5.1282 | |
| jmaeng-gatk | SNP | * | map_siren | hetalt | 88.0000 | 81.4815 | 95.6522 | 83.0882 | 66 | 15 | 66 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | SNP | * | segdup | het | 97.9514 | 99.4283 | 96.5177 | 95.0045 | 17218 | 99 | 17212 | 621 | 2 | 0.3221 | |
| jmaeng-gatk | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 47.6351 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | tech_badpromoters | homalt | 98.1366 | 98.7500 | 97.5309 | 47.0588 | 79 | 1 | 79 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | hetalt | 97.2973 | 95.6522 | 99.0000 | 40.4762 | 198 | 9 | 198 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.3050 | 98.9840 | 99.6281 | 65.8771 | 3215 | 33 | 3215 | 12 | 2 | 16.6667 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.0330 | 98.6660 | 99.4027 | 68.8043 | 1997 | 27 | 1997 | 12 | 2 | 16.6667 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7953 | 99.6820 | 99.9089 | 42.1191 | 2194 | 7 | 2194 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5812 | 99.7018 | 99.4609 | 42.3318 | 10700 | 32 | 10700 | 58 | 2 | 3.4483 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7565 | 99.6672 | 99.8461 | 33.6736 | 3893 | 13 | 3892 | 6 | 2 | 33.3333 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7896 | 99.7197 | 99.8596 | 27.8116 | 1423 | 4 | 1423 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m0_e0 | homalt | 77.0009 | 62.6190 | 99.9589 | 69.2803 | 4868 | 2906 | 4868 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m1_e0 | homalt | 77.2828 | 62.9878 | 99.9713 | 72.8260 | 6957 | 4088 | 6957 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e0 | homalt | 77.8495 | 63.7436 | 99.9724 | 74.8690 | 7240 | 4118 | 7240 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e1 | homalt | 78.0137 | 63.9640 | 99.9727 | 74.8162 | 7329 | 4129 | 7329 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l250_m0_e0 | * | 64.0900 | 47.8102 | 97.1810 | 98.0371 | 655 | 715 | 655 | 19 | 2 | 10.5263 | |
| jmaeng-gatk | SNP | ti | map_l250_m0_e0 | het | 64.8227 | 48.9293 | 96.0084 | 98.4090 | 457 | 477 | 457 | 19 | 2 | 10.5263 | |
| jmaeng-gatk | SNP | ti | map_siren | hetalt | 88.6792 | 82.4561 | 95.9184 | 81.0078 | 47 | 10 | 47 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | segdup | het | 98.2022 | 99.4514 | 96.9839 | 94.5092 | 11964 | 66 | 11962 | 372 | 2 | 0.5376 | |
| jmaeng-gatk | SNP | tv | HG002complexvar | hetalt | 97.8723 | 96.4516 | 99.3355 | 40.5138 | 299 | 11 | 299 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.7817 | 98.0847 | 99.4888 | 71.9690 | 973 | 19 | 973 | 5 | 2 | 40.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7668 | 99.5543 | 99.9801 | 61.8690 | 10052 | 45 | 10052 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 96.6154 | 95.1515 | 98.1250 | 91.0814 | 157 | 8 | 157 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.3265 | 95.1613 | 97.5207 | 90.8055 | 118 | 6 | 118 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8072 | 99.6609 | 99.9540 | 61.5860 | 10874 | 37 | 10870 | 5 | 2 | 40.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6666 | 99.6812 | 99.6520 | 39.8884 | 3439 | 11 | 3436 | 12 | 2 | 16.6667 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6261 | 99.8129 | 99.4400 | 42.7465 | 2134 | 4 | 2131 | 12 | 2 | 16.6667 | |
| jmaeng-gatk | SNP | tv | map_l250_m1_e0 | * | 67.4516 | 51.9456 | 96.1538 | 96.4328 | 1375 | 1272 | 1375 | 55 | 2 | 3.6364 | |
| jmaeng-gatk | SNP | tv | map_l250_m2_e0 | * | 69.2000 | 54.0250 | 96.2299 | 96.4918 | 1557 | 1325 | 1557 | 61 | 2 | 3.2787 | |
| jmaeng-gatk | SNP | tv | map_l250_m2_e1 | * | 69.5004 | 54.3896 | 96.2379 | 96.4989 | 1586 | 1330 | 1586 | 62 | 2 | 3.2258 | |
| jmaeng-gatk | SNP | tv | map_siren | hetalt | 88.0000 | 81.4815 | 95.6522 | 83.0882 | 66 | 15 | 66 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 14.8148 | 8.5106 | 57.1429 | 80.5556 | 4 | 43 | 4 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | INDEL | * | map_l150_m0_e0 | homalt | 95.2978 | 92.6829 | 98.0645 | 90.6514 | 152 | 12 | 152 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | INDEL | * | map_l250_m1_e0 | homalt | 93.8967 | 91.7431 | 96.1538 | 94.0673 | 100 | 9 | 100 | 4 | 2 | 50.0000 | |
| jpowers-varprowl | INDEL | * | map_l250_m2_e0 | homalt | 94.2222 | 92.1739 | 96.3636 | 94.4276 | 106 | 9 | 106 | 4 | 2 | 50.0000 | |
| jpowers-varprowl | INDEL | * | map_l250_m2_e1 | homalt | 94.2731 | 92.2414 | 96.3964 | 94.4995 | 107 | 9 | 107 | 4 | 2 | 50.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 28.5714 | 25.0000 | 33.3333 | 98.2857 | 1 | 3 | 1 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | het | 50.0000 | 100.0000 | 33.3333 | 97.9452 | 1 | 0 | 1 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 28.5714 | 25.0000 | 33.3333 | 98.2558 | 1 | 3 | 1 | 2 | 2 | 100.0000 | |