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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60651-60700 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7054 | 99.7642 | 99.6466 | 52.8246 | 2538 | 6 | 2538 | 9 | 1 | 11.1111 | |
| jpowers-varprowl | INDEL | D16_PLUS | segdup | * | 80.4978 | 77.5862 | 83.6364 | 94.2827 | 45 | 13 | 46 | 9 | 8 | 88.8889 | |
| jpowers-varprowl | INDEL | D16_PLUS | segdup | het | 86.6873 | 94.5946 | 80.0000 | 94.4030 | 35 | 2 | 36 | 9 | 8 | 88.8889 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 4.7393 | 2.5381 | 35.7143 | 92.6316 | 5 | 192 | 5 | 9 | 7 | 77.7778 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m1_e0 | * | 92.5373 | 90.6433 | 94.5122 | 95.5544 | 155 | 16 | 155 | 9 | 4 | 44.4444 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m2_e0 | * | 93.0748 | 91.3043 | 94.9153 | 95.7686 | 168 | 16 | 168 | 9 | 4 | 44.4444 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m2_e1 | * | 93.1129 | 91.3514 | 94.9438 | 95.8431 | 169 | 16 | 169 | 9 | 4 | 44.4444 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.6684 | 97.6684 | 97.6684 | 90.9048 | 377 | 9 | 377 | 9 | 4 | 44.4444 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.4820 | 98.1884 | 96.7857 | 90.8765 | 271 | 5 | 271 | 9 | 4 | 44.4444 | |
| jli-custom | SNP | * | map_l125_m0_e0 | homalt | 99.5817 | 99.2998 | 99.8651 | 65.5375 | 6665 | 47 | 6665 | 9 | 9 | 100.0000 | |
| jli-custom | SNP | ti | map_l250_m0_e0 | * | 97.5483 | 95.8394 | 99.3192 | 90.4686 | 1313 | 57 | 1313 | 9 | 7 | 77.7778 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5146 | 99.6528 | 99.3767 | 68.2498 | 1435 | 5 | 1435 | 9 | 0 | 0.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.2358 | 99.4530 | 99.0196 | 68.7861 | 909 | 5 | 909 | 9 | 0 | 0.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.1690 | 99.0514 | 99.2868 | 87.9764 | 1253 | 12 | 1253 | 9 | 4 | 44.4444 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8303 | 99.7434 | 99.9174 | 59.7828 | 10883 | 28 | 10881 | 9 | 5 | 55.5556 | |
| jli-custom | SNP | tv | map_siren | homalt | 99.8403 | 99.7332 | 99.9477 | 52.3546 | 17194 | 46 | 17191 | 9 | 9 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.0868 | 89.5385 | 99.1220 | 39.9179 | 873 | 102 | 1016 | 9 | 9 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3890 | 97.1354 | 97.6440 | 85.9662 | 373 | 11 | 373 | 9 | 2 | 22.2222 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.9073 | 92.8033 | 99.2261 | 33.2760 | 1109 | 86 | 1154 | 9 | 8 | 88.8889 | |
| jlack-gatk | INDEL | * | map_l100_m0_e0 | homalt | 98.2318 | 98.2318 | 98.2318 | 84.2415 | 500 | 9 | 500 | 9 | 4 | 44.4444 | |
| jlack-gatk | INDEL | * | map_l125_m2_e0 | homalt | 98.8204 | 98.8204 | 98.8204 | 86.3286 | 754 | 9 | 754 | 9 | 4 | 44.4444 | |
| jlack-gatk | INDEL | D16_PLUS | HG002compoundhet | hetalt | 95.0565 | 90.9751 | 99.5213 | 25.2782 | 1754 | 174 | 1871 | 9 | 9 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.3157 | 84.9354 | 98.7324 | 37.8284 | 592 | 105 | 701 | 9 | 9 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | func_cds | * | 97.2644 | 100.0000 | 94.6746 | 52.7933 | 159 | 0 | 160 | 9 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D1_5 | func_cds | het | 95.0276 | 100.0000 | 90.5263 | 62.0000 | 85 | 0 | 86 | 9 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 88.0509 | 79.0340 | 99.3902 | 32.6949 | 1440 | 382 | 1467 | 9 | 8 | 88.8889 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3837 | 99.3515 | 99.4160 | 78.0297 | 1532 | 10 | 1532 | 9 | 5 | 55.5556 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8365 | 99.9182 | 99.7549 | 50.2169 | 3663 | 3 | 3663 | 9 | 9 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l150_m2_e1 | * | 93.1818 | 96.4706 | 90.1099 | 93.5825 | 82 | 3 | 82 | 9 | 1 | 11.1111 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.7681 | 90.2913 | 95.3846 | 88.0074 | 186 | 20 | 186 | 9 | 6 | 66.6667 | |
| jlack-gatk | INDEL | I1_5 | func_cds | * | 97.5741 | 100.0000 | 95.2632 | 47.6584 | 180 | 0 | 181 | 9 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | func_cds | het | 93.0233 | 100.0000 | 86.9565 | 63.4921 | 59 | 0 | 60 | 9 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2669 | 96.0317 | 98.5342 | 65.6983 | 605 | 25 | 605 | 9 | 6 | 66.6667 | |
| jlack-gatk | INDEL | I6_15 | HG002complexvar | het | 98.9714 | 98.3439 | 99.6068 | 59.5940 | 2316 | 39 | 2280 | 9 | 8 | 88.8889 | |
| jlack-gatk | INDEL | I6_15 | segdup | * | 95.7507 | 96.5714 | 94.9438 | 93.8621 | 169 | 6 | 169 | 9 | 1 | 11.1111 | |
| jlack-gatk | SNP | ti | map_l125_m0_e0 | homalt | 98.7968 | 97.8179 | 99.7955 | 67.3853 | 4393 | 98 | 4393 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | ti | map_l150_m1_e0 | homalt | 99.0574 | 98.2530 | 99.8751 | 68.9978 | 7199 | 128 | 7199 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | ti | map_l150_m2_e0 | homalt | 99.0801 | 98.2931 | 99.8799 | 71.3088 | 7486 | 130 | 7486 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | ti | map_l150_m2_e1 | homalt | 99.0828 | 98.2972 | 99.8811 | 71.3252 | 7562 | 131 | 7562 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.0943 | 98.4288 | 99.7688 | 70.0054 | 3884 | 62 | 3884 | 9 | 6 | 66.6667 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.1124 | 98.4570 | 99.7766 | 72.3207 | 4020 | 63 | 4020 | 9 | 6 | 66.6667 | |
| jlack-gatk | SNP | tv | map_l150_m2_e1 | homalt | 99.1112 | 98.4519 | 99.7794 | 72.2800 | 4070 | 64 | 4070 | 9 | 6 | 66.6667 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4857 | 99.1089 | 99.8653 | 46.8501 | 6673 | 60 | 6673 | 9 | 5 | 55.5556 | |
| jli-custom | INDEL | * | map_l250_m1_e0 | het | 95.8115 | 96.3158 | 95.3125 | 95.5556 | 183 | 7 | 183 | 9 | 2 | 22.2222 | |
| jli-custom | INDEL | * | map_l250_m2_e0 | het | 96.2085 | 96.6667 | 95.7547 | 95.7137 | 203 | 7 | 203 | 9 | 2 | 22.2222 | |
| jli-custom | INDEL | * | map_l250_m2_e1 | het | 96.2264 | 96.6825 | 95.7746 | 95.8087 | 204 | 7 | 204 | 9 | 2 | 22.2222 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m0_e0 | * | 98.5962 | 98.9919 | 98.2036 | 86.2287 | 491 | 5 | 492 | 9 | 2 | 22.2222 | |
| hfeng-pmm3 | INDEL | I16_PLUS | HG002complexvar | * | 98.2632 | 97.2498 | 99.2980 | 66.8048 | 1273 | 36 | 1273 | 9 | 8 | 88.8889 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.4427 | 100.0000 | 93.1298 | 85.5088 | 122 | 0 | 122 | 9 | 9 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.5799 | 90.9722 | 96.3415 | 79.3277 | 262 | 26 | 237 | 9 | 5 | 55.5556 | |