PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37551-37600 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9703 | 99.9604 | 99.9802 | 50.4100 | 10098 | 4 | 10098 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | HG002compoundhet | homalt | 70.6370 | 99.4169 | 54.7791 | 80.4614 | 682 | 4 | 682 | 563 | 558 | 99.1119 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7615 | 99.7879 | 99.7350 | 71.4307 | 1882 | 4 | 1882 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 98.4615 | 96.9697 | 100.0000 | 80.1527 | 128 | 4 | 130 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | * | map_l100_m0_e0 | homalt | 98.6328 | 99.2141 | 98.0583 | 83.0759 | 505 | 4 | 505 | 10 | 5 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l125_m1_e0 | homalt | 99.3179 | 99.4536 | 99.1826 | 84.3929 | 728 | 4 | 728 | 6 | 4 | 66.6667 | |
| hfeng-pmm2 | INDEL | * | map_l125_m2_e0 | homalt | 99.2157 | 99.4758 | 98.9570 | 85.4238 | 759 | 4 | 759 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l125_m2_e1 | hetalt | 95.1220 | 90.6977 | 100.0000 | 93.7400 | 39 | 4 | 39 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | * | map_l125_m2_e1 | homalt | 99.2268 | 99.4832 | 98.9717 | 85.5417 | 770 | 4 | 770 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m1_e0 | homalt | 99.0270 | 99.1342 | 98.9201 | 87.1816 | 458 | 4 | 458 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m2_e0 | homalt | 99.0654 | 99.1684 | 98.9627 | 88.3152 | 477 | 4 | 477 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m2_e1 | homalt | 98.9858 | 99.1870 | 98.7854 | 88.2938 | 488 | 4 | 488 | 6 | 4 | 66.6667 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.3116 | 97.6190 | 97.0060 | 78.0552 | 164 | 4 | 162 | 5 | 2 | 40.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 91.6667 | 84.6154 | 100.0000 | 90.6383 | 22 | 4 | 22 | 0 | 0 | ||
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 90.4762 | 82.6087 | 100.0000 | 72.1519 | 19 | 4 | 22 | 0 | 0 | ||
| jlack-gatk | INDEL | I16_PLUS | map_siren | * | 94.2920 | 95.3488 | 93.2584 | 92.8743 | 82 | 4 | 83 | 6 | 1 | 16.6667 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.6364 | 95.1220 | 82.9787 | 75.1323 | 78 | 4 | 78 | 16 | 16 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 38.6555 | 85.1852 | 25.0000 | 93.6508 | 23 | 4 | 2 | 6 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 91.3043 | 84.0000 | 100.0000 | 63.1579 | 21 | 4 | 21 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 90.4762 | 82.6087 | 100.0000 | 13.6364 | 19 | 4 | 19 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | map_l100_m1_e0 | hetalt | 95.2381 | 90.9091 | 100.0000 | 90.1720 | 40 | 4 | 40 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e0 | hetalt | 95.2381 | 90.9091 | 100.0000 | 90.9502 | 40 | 4 | 40 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.1533 | 99.2467 | 99.0602 | 82.1116 | 527 | 4 | 527 | 5 | 3 | 60.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e1 | hetalt | 95.3488 | 91.1111 | 100.0000 | 90.8686 | 41 | 4 | 41 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.1674 | 99.2593 | 99.0758 | 82.1511 | 536 | 4 | 536 | 5 | 3 | 60.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m1_e0 | * | 92.3077 | 96.2264 | 88.6957 | 97.0805 | 102 | 4 | 102 | 13 | 2 | 15.3846 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m1_e0 | het | 88.8889 | 93.3333 | 84.8485 | 97.8138 | 56 | 4 | 56 | 10 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m2_e0 | * | 92.7660 | 96.4602 | 89.3443 | 97.3426 | 109 | 4 | 109 | 13 | 2 | 15.3846 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m2_e0 | het | 89.8551 | 93.9394 | 86.1111 | 97.9417 | 62 | 4 | 62 | 10 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m2_e1 | * | 92.8270 | 96.4912 | 89.4309 | 97.3985 | 110 | 4 | 110 | 13 | 2 | 15.3846 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m2_e1 | het | 89.8551 | 93.9394 | 86.1111 | 98.0083 | 62 | 4 | 62 | 10 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | HG002complexvar | homalt | 97.1497 | 99.6705 | 94.7533 | 55.9047 | 1210 | 4 | 1210 | 67 | 66 | 98.5075 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.6398 | 99.5152 | 90.2198 | 70.6072 | 821 | 4 | 821 | 89 | 86 | 96.6292 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 96.0000 | 92.3077 | 100.0000 | 61.7188 | 48 | 4 | 49 | 0 | 0 | ||
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.6398 | 99.5152 | 90.2198 | 70.6072 | 821 | 4 | 821 | 89 | 86 | 96.6292 | |
| jlack-gatk | INDEL | I6_15 | map_l100_m0_e0 | * | 87.8788 | 87.8788 | 87.8788 | 93.2927 | 29 | 4 | 29 | 4 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l125_m1_e0 | het | 83.8710 | 86.6667 | 81.2500 | 93.6759 | 26 | 4 | 26 | 6 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l125_m2_e0 | het | 83.8710 | 86.6667 | 81.2500 | 94.3860 | 26 | 4 | 26 | 6 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l125_m2_e1 | het | 83.8710 | 86.6667 | 81.2500 | 94.5299 | 26 | 4 | 26 | 6 | 0 | 0.0000 | |
| jlack-gatk | SNP | * | func_cds | homalt | 99.9713 | 99.9427 | 100.0000 | 21.3464 | 6975 | 4 | 6975 | 0 | 0 | ||
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.8134 | 99.7514 | 99.8755 | 42.5661 | 1605 | 4 | 1605 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | * | hetalt | 98.8034 | 99.3127 | 98.2993 | 52.8846 | 578 | 4 | 578 | 10 | 10 | 100.0000 | |
| jlack-gatk | SNP | ti | HG002compoundhet | hetalt | 99.6534 | 99.3092 | 100.0000 | 21.8750 | 575 | 4 | 575 | 0 | 0 | ||
| jlack-gatk | SNP | ti | func_cds | homalt | 99.9621 | 99.9242 | 100.0000 | 19.9058 | 5271 | 4 | 5271 | 0 | 0 | ||
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.7338 | 99.6454 | 99.8224 | 41.5672 | 1124 | 4 | 1124 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4518 | 99.8428 | 99.0640 | 53.5675 | 2540 | 4 | 2540 | 24 | 0 | 0.0000 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.8950 | 99.4444 | 98.3516 | 88.4426 | 716 | 4 | 716 | 12 | 3 | 25.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 91.6509 | 92.0000 | 91.3043 | 82.6415 | 46 | 4 | 42 | 4 | 2 | 50.0000 | |
| jli-custom | INDEL | * | map_l125_m1_e0 | hetalt | 94.7368 | 90.0000 | 100.0000 | 92.6078 | 36 | 4 | 36 | 0 | 0 | ||
| jli-custom | INDEL | * | map_l125_m2_e0 | hetalt | 95.0000 | 90.4762 | 100.0000 | 93.1777 | 38 | 4 | 38 | 0 | 0 | ||