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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66801-66850 / 86044 show all | |||||||||||||||
| 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_SimpleRepeat_quadTR_11to50 | * | 98.5356 | 98.2273 | 98.8458 | 72.2319 | 942 | 17 | 942 | 11 | 9 | 81.8182 | |
| hfeng-pmm3 | SNP | tv | map_l150_m1_e0 | * | 99.3718 | 99.3127 | 99.4310 | 74.1360 | 10837 | 75 | 10835 | 62 | 9 | 14.5161 | |
| hfeng-pmm3 | SNP | tv | map_l150_m2_e0 | * | 99.3876 | 99.3395 | 99.4357 | 75.5855 | 11280 | 75 | 11278 | 64 | 9 | 14.0625 | |
| hfeng-pmm3 | SNP | tv | map_l150_m2_e1 | * | 99.3954 | 99.3479 | 99.4429 | 75.5927 | 11427 | 75 | 11425 | 64 | 9 | 14.0625 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5173 | 99.5860 | 99.4487 | 75.8037 | 3608 | 15 | 3608 | 20 | 9 | 45.0000 | |
| jlack-gatk | INDEL | * | map_l125_m2_e0 | het | 92.6228 | 98.1308 | 87.7002 | 91.9195 | 1365 | 26 | 1369 | 192 | 9 | 4.6875 | |
| jlack-gatk | INDEL | * | map_l125_m2_e1 | het | 92.6447 | 98.1534 | 87.7215 | 91.9821 | 1382 | 26 | 1386 | 194 | 9 | 4.6392 | |
| jlack-gatk | INDEL | * | map_l150_m1_e0 | * | 93.5297 | 98.0568 | 89.4022 | 92.0707 | 1312 | 26 | 1316 | 156 | 9 | 5.7692 | |
| jlack-gatk | INDEL | * | map_l150_m2_e0 | * | 93.7096 | 98.1534 | 89.6507 | 92.6142 | 1382 | 26 | 1386 | 160 | 9 | 5.6250 | |
| 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 | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.1723 | 98.0188 | 98.3264 | 71.8409 | 940 | 19 | 940 | 16 | 9 | 56.2500 | |
| 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 | I1_5 | HG002compoundhet | hetalt | 94.9037 | 90.3820 | 99.9017 | 57.2515 | 10102 | 1075 | 10162 | 10 | 9 | 90.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.9898 | 93.7500 | 94.2308 | 79.6557 | 270 | 18 | 245 | 15 | 9 | 60.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.6455 | 92.3077 | 95.0226 | 80.9154 | 228 | 19 | 210 | 11 | 9 | 81.8182 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3732 | 96.7655 | 97.9885 | 73.3129 | 718 | 24 | 682 | 14 | 9 | 64.2857 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.0016 | 98.8665 | 99.1370 | 66.6503 | 4710 | 54 | 4710 | 41 | 9 | 21.9512 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.6913 | 98.9198 | 98.4639 | 87.5787 | 1282 | 14 | 1282 | 20 | 9 | 45.0000 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.4922 | 99.5870 | 99.3976 | 71.7079 | 3135 | 13 | 3135 | 19 | 9 | 47.3684 | |
| jlack-gatk | SNP | ti | map_l125_m1_e0 | homalt | 99.2298 | 98.5695 | 99.8991 | 63.8084 | 10887 | 158 | 10887 | 11 | 9 | 81.8182 | |
| jlack-gatk | SNP | ti | map_l125_m2_e0 | homalt | 99.2423 | 98.5913 | 99.9019 | 66.3888 | 11198 | 160 | 11198 | 11 | 9 | 81.8182 | |
| jlack-gatk | SNP | ti | map_l125_m2_e1 | homalt | 99.2489 | 98.6036 | 99.9027 | 66.4043 | 11298 | 160 | 11298 | 11 | 9 | 81.8182 | |
| jlack-gatk | SNP | tv | HG002compoundhet | homalt | 99.7638 | 99.8229 | 99.7048 | 42.2900 | 3382 | 6 | 3377 | 10 | 9 | 90.0000 | |
| jlack-gatk | SNP | tv | map_l250_m0_e0 | * | 89.3051 | 96.6013 | 83.0337 | 95.8027 | 739 | 26 | 739 | 151 | 9 | 5.9603 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4343 | 98.6357 | 98.2337 | 71.3284 | 723 | 10 | 723 | 13 | 9 | 69.2308 | |
| jli-custom | INDEL | * | map_l100_m1_e0 | het | 98.3638 | 98.1208 | 98.6080 | 83.1747 | 2193 | 42 | 2196 | 31 | 9 | 29.0323 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | het | 98.3050 | 98.0061 | 98.6057 | 84.0570 | 2261 | 46 | 2263 | 32 | 9 | 28.1250 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | het | 98.3311 | 98.0367 | 98.6272 | 84.1536 | 2297 | 46 | 2299 | 32 | 9 | 28.1250 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.0246 | 94.2424 | 95.8199 | 71.5462 | 311 | 19 | 298 | 13 | 9 | 69.2308 | |
| 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 | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9204 | 87.9187 | 98.5255 | 66.5471 | 735 | 101 | 735 | 11 | 9 | 81.8182 | |
| hfeng-pmm3 | SNP | * | map_l125_m0_e0 | het | 99.1347 | 99.0682 | 99.2012 | 76.1218 | 12546 | 118 | 12543 | 101 | 9 | 8.9109 | |
| hfeng-pmm3 | SNP | * | map_l125_m0_e0 | homalt | 99.5977 | 99.5828 | 99.6125 | 70.7306 | 6684 | 28 | 6684 | 26 | 9 | 34.6154 | |
| hfeng-pmm3 | SNP | * | map_l150_m0_e0 | * | 99.1727 | 99.1439 | 99.2015 | 79.7142 | 11929 | 103 | 11926 | 96 | 9 | 9.3750 | |
| hfeng-pmm3 | SNP | * | map_l250_m1_e0 | * | 98.9535 | 98.8507 | 99.0565 | 88.1658 | 7139 | 83 | 7139 | 68 | 9 | 13.2353 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e0 | * | 99.0163 | 98.9347 | 99.0981 | 88.6629 | 7801 | 84 | 7801 | 71 | 9 | 12.6761 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e1 | * | 99.0226 | 98.9358 | 99.1095 | 88.7342 | 7902 | 85 | 7902 | 71 | 9 | 12.6761 | |
| hfeng-pmm3 | SNP | ti | map_l100_m1_e0 | het | 99.5602 | 99.4256 | 99.6952 | 64.3351 | 29770 | 172 | 29763 | 91 | 9 | 9.8901 | |
| hfeng-pmm3 | SNP | ti | map_l100_m2_e0 | het | 99.5618 | 99.4285 | 99.6954 | 65.7218 | 30447 | 175 | 30440 | 93 | 9 | 9.6774 | |
| hfeng-pmm3 | SNP | ti | map_l100_m2_e1 | het | 99.5633 | 99.4315 | 99.6955 | 65.7255 | 30784 | 176 | 30777 | 94 | 9 | 9.5745 | |
| hfeng-pmm3 | SNP | tv | HG002complexvar | homalt | 99.9769 | 99.9643 | 99.9895 | 22.8756 | 95077 | 34 | 95069 | 10 | 9 | 90.0000 | |
| hfeng-pmm1 | INDEL | * | map_siren | homalt | 99.4357 | 99.4727 | 99.3987 | 79.2482 | 2641 | 14 | 2645 | 16 | 9 | 56.2500 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002complexvar | het | 98.9178 | 97.9388 | 99.9165 | 54.1519 | 20337 | 428 | 20340 | 17 | 9 | 52.9412 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.4427 | 100.0000 | 93.1298 | 86.0341 | 122 | 0 | 122 | 9 | 9 | 100.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2475 | 95.8170 | 98.7214 | 83.8109 | 1466 | 64 | 1467 | 19 | 9 | 47.3684 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2475 | 95.8170 | 98.7214 | 83.8109 | 1466 | 64 | 1467 | 19 | 9 | 47.3684 | |