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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5451-5500 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | tv | map_l100_m1_e0 | hetalt | 93.9759 | 95.1220 | 92.8571 | 84.6154 | 39 | 2 | 39 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l100_m2_e0 | hetalt | 94.1176 | 95.2381 | 93.0233 | 86.0841 | 40 | 2 | 40 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l100_m2_e1 | hetalt | 94.2529 | 95.3488 | 93.1818 | 85.8065 | 41 | 2 | 41 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l125_m0_e0 | hetalt | 84.2105 | 88.8889 | 80.0000 | 90.9910 | 8 | 1 | 8 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l125_m1_e0 | hetalt | 93.3333 | 93.3333 | 93.3333 | 86.7257 | 28 | 2 | 28 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l125_m2_e0 | hetalt | 93.3333 | 93.3333 | 93.3333 | 88.6364 | 28 | 2 | 28 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | hetalt | 93.3333 | 93.3333 | 93.3333 | 88.6364 | 28 | 2 | 28 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l150_m0_e0 | hetalt | 75.0000 | 100.0000 | 60.0000 | 94.7368 | 3 | 0 | 3 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | hetalt | 90.0000 | 90.0000 | 90.0000 | 89.5833 | 18 | 2 | 18 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | hetalt | 90.0000 | 90.0000 | 90.0000 | 91.0314 | 18 | 2 | 18 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l150_m2_e1 | hetalt | 90.0000 | 90.0000 | 90.0000 | 91.0314 | 18 | 2 | 18 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l250_m0_e0 | hetalt | 0.0000 | 0.0000 | 98.3051 | 0 | 0 | 0 | 1 | 1 | 100.0000 | ||
| jlack-gatk | SNP | tv | map_l250_m1_e0 | hetalt | 75.0000 | 75.0000 | 75.0000 | 96.4912 | 3 | 1 | 3 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l250_m2_e0 | hetalt | 80.0000 | 80.0000 | 80.0000 | 96.3504 | 4 | 1 | 4 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l250_m2_e1 | hetalt | 80.0000 | 80.0000 | 80.0000 | 96.3504 | 4 | 1 | 4 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | tv | segdup | hetalt | 93.3333 | 100.0000 | 87.5000 | 98.2533 | 7 | 0 | 7 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | tv | segdup | homalt | 99.8611 | 99.9074 | 99.8149 | 89.7982 | 3235 | 3 | 3235 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | * | func_cds | homalt | 99.7792 | 100.0000 | 99.5595 | 36.4146 | 226 | 0 | 226 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 95.0712 | 90.9871 | 99.5392 | 72.7044 | 212 | 21 | 216 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.2817 | 91.6667 | 99.1935 | 76.9517 | 121 | 11 | 123 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 90.6149 | 83.1470 | 99.5567 | 28.0153 | 1041 | 211 | 1123 | 5 | 5 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 93.0441 | 87.4766 | 99.3684 | 70.7692 | 468 | 67 | 472 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9292 | 99.9557 | 99.9027 | 55.9852 | 11291 | 5 | 11292 | 11 | 11 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.3074 | 94.9664 | 99.7667 | 39.5535 | 2547 | 135 | 2566 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8026 | 99.8847 | 99.7206 | 56.2796 | 6065 | 7 | 6068 | 17 | 17 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 98.5175 | 97.1831 | 99.8891 | 27.3167 | 897 | 26 | 901 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9303 | 100.0000 | 99.8608 | 46.0035 | 2152 | 0 | 2152 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 94.8454 | 97.8723 | 92.0000 | 50.9804 | 46 | 1 | 46 | 4 | 4 | 100.0000 | |
| jli-custom | INDEL | * | map_l150_m0_e0 | homalt | 98.4802 | 98.7805 | 98.1818 | 90.1610 | 162 | 2 | 162 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | * | map_l250_m0_e0 | homalt | 93.8776 | 92.0000 | 95.8333 | 97.2603 | 23 | 2 | 23 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | map_l250_m1_e0 | homalt | 97.6959 | 97.2477 | 98.1481 | 94.2706 | 106 | 3 | 106 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | * | map_l250_m2_e0 | homalt | 97.8166 | 97.3913 | 98.2456 | 94.8158 | 112 | 3 | 112 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | * | map_l250_m2_e1 | homalt | 97.8355 | 97.4138 | 98.2609 | 94.9227 | 113 | 3 | 113 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | * | hetalt | 97.3443 | 95.3958 | 99.3741 | 36.1316 | 1844 | 89 | 2064 | 13 | 13 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | HG002complexvar | hetalt | 94.0295 | 91.0931 | 97.1616 | 45.1497 | 225 | 22 | 445 | 13 | 13 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | HG002compoundhet | hetalt | 97.5241 | 95.5394 | 99.5931 | 24.6166 | 1842 | 86 | 1958 | 8 | 8 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | HG002compoundhet | homalt | 59.2593 | 100.0000 | 42.1053 | 67.7966 | 8 | 0 | 8 | 11 | 11 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.7582 | 92.5128 | 99.2395 | 38.0448 | 902 | 73 | 1044 | 8 | 8 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.5010 | 97.5270 | 99.4946 | 34.2043 | 1262 | 32 | 1378 | 7 | 7 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.3685 | 95.4428 | 99.3735 | 36.0555 | 1843 | 88 | 2062 | 13 | 13 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.7127 | 92.2652 | 89.2116 | 81.5184 | 334 | 28 | 215 | 26 | 26 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.9368 | 91.2482 | 98.9362 | 35.6164 | 636 | 61 | 744 | 8 | 8 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.2685 | 95.4338 | 95.1039 | 78.5282 | 836 | 40 | 641 | 33 | 33 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.2360 | 95.2999 | 99.2524 | 31.1832 | 1541 | 76 | 1726 | 13 | 13 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.8315 | 98.4480 | 99.2179 | 58.3587 | 1903 | 30 | 1903 | 15 | 15 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.7503 | 97.5332 | 97.9684 | 78.6403 | 514 | 13 | 434 | 9 | 9 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.9021 | 98.3051 | 99.5064 | 29.1608 | 928 | 16 | 1008 | 5 | 5 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.7835 | 99.7835 | 99.7835 | 58.0762 | 461 | 1 | 461 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.1957 | 95.2092 | 99.2668 | 33.4959 | 1570 | 79 | 1760 | 13 | 13 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.3685 | 95.4428 | 99.3735 | 36.0555 | 1843 | 88 | 2062 | 13 | 13 | 100.0000 | |