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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
16351-16400 / 86044 show all | |||||||||||||||
| dgrover-gatk | SNP | tv | segdup | het | 99.5280 | 99.7730 | 99.2842 | 92.5335 | 5275 | 12 | 5271 | 38 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | * | map_l125_m1_e0 | * | 97.9556 | 97.7219 | 98.1905 | 98.1653 | 2059 | 48 | 2062 | 38 | 14 | 36.8421 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e0 | * | 98.0153 | 97.7687 | 98.2633 | 98.2577 | 2147 | 49 | 2150 | 38 | 14 | 36.8421 | |
| ckim-isaac | SNP | * | map_l100_m0_e0 | het | 77.3393 | 63.1643 | 99.7172 | 71.7888 | 13394 | 7811 | 13397 | 38 | 6 | 15.7895 | |
| ckim-isaac | SNP | ti | map_l125_m2_e0 | * | 75.2532 | 60.4006 | 99.7925 | 72.3144 | 18276 | 11982 | 18276 | 38 | 7 | 18.4211 | |
| ckim-isaac | SNP | tv | map_l100_m2_e1 | * | 75.8227 | 61.1518 | 99.7549 | 67.3250 | 15461 | 9822 | 15464 | 38 | 12 | 31.5789 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.8827 | 94.2729 | 99.6411 | 27.0328 | 10469 | 636 | 10551 | 38 | 38 | 100.0000 | |
| qzeng-custom | INDEL | D16_PLUS | map_l125_m1_e0 | het | 54.1353 | 90.0000 | 38.7097 | 94.2056 | 18 | 2 | 24 | 38 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.8040 | 97.3134 | 96.2999 | 62.2704 | 978 | 27 | 989 | 38 | 13 | 34.2105 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 79.6385 | 80.2817 | 79.0055 | 39.4649 | 114 | 28 | 143 | 38 | 18 | 47.3684 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.8393 | 94.3128 | 83.9662 | 66.8067 | 199 | 12 | 199 | 38 | 33 | 86.8421 | |
| ndellapenna-hhga | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.4390 | 98.0603 | 98.8206 | 66.9267 | 3185 | 63 | 3184 | 38 | 10 | 26.3158 | |
| ndellapenna-hhga | SNP | tv | map_l125_m2_e0 | het | 98.8271 | 98.0368 | 99.6302 | 69.6751 | 10237 | 205 | 10237 | 38 | 16 | 42.1053 | |
| qzeng-custom | SNP | ti | map_l150_m2_e1 | homalt | 80.1365 | 67.1910 | 99.2610 | 72.9055 | 5169 | 2524 | 5104 | 38 | 38 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 73.7321 | 76.6917 | 70.9924 | 82.6490 | 102 | 31 | 93 | 38 | 38 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | hetalt | 79.4743 | 66.1627 | 99.4916 | 57.4825 | 7395 | 3782 | 7437 | 38 | 38 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m0_e0 | homalt | 67.7419 | 60.5769 | 76.8293 | 73.2463 | 126 | 82 | 126 | 38 | 36 | 94.7368 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.8267 | 99.3639 | 98.2952 | 44.3446 | 2187 | 14 | 2191 | 38 | 38 | 100.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.3589 | 97.3161 | 99.4242 | 37.2504 | 6563 | 181 | 6562 | 38 | 5 | 13.1579 | |
| mlin-fermikit | SNP | ti | map_l125_m0_e0 | het | 49.2645 | 32.8331 | 98.6182 | 61.3058 | 2713 | 5550 | 2712 | 38 | 3 | 7.8947 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.0443 | 87.5315 | 94.8509 | 85.4150 | 695 | 99 | 700 | 38 | 2 | 5.2632 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.9633 | 96.4517 | 99.5230 | 36.1107 | 7883 | 290 | 7929 | 38 | 38 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002compoundhet | het | 95.9122 | 96.4706 | 95.3602 | 73.5551 | 820 | 30 | 781 | 38 | 14 | 36.8421 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 94.8280 | 94.2961 | 95.3659 | 70.4398 | 777 | 47 | 782 | 38 | 27 | 71.0526 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 83.3504 | 84.7561 | 81.9905 | 78.4033 | 139 | 25 | 173 | 38 | 34 | 89.4737 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 85.8564 | 81.2500 | 91.0165 | 80.0283 | 390 | 90 | 385 | 38 | 24 | 63.1579 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.8922 | 94.2909 | 99.6412 | 27.0291 | 10471 | 634 | 10553 | 38 | 38 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0078 | 97.9824 | 98.0331 | 65.1766 | 1894 | 39 | 1894 | 38 | 36 | 94.7368 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1124 | 94.7719 | 99.5714 | 64.0050 | 8810 | 486 | 8829 | 38 | 38 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8615 | 94.3541 | 99.5059 | 29.2939 | 7604 | 455 | 7652 | 38 | 38 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8615 | 94.3541 | 99.5059 | 29.2939 | 7604 | 455 | 7652 | 38 | 38 | 100.0000 | |
| cchapple-custom | INDEL | * | map_l150_m0_e0 | * | 94.1997 | 95.5253 | 92.9104 | 91.8068 | 491 | 23 | 498 | 38 | 8 | 21.0526 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m1_e0 | * | 95.8402 | 96.9317 | 94.7730 | 87.3013 | 695 | 22 | 689 | 38 | 5 | 13.1579 | |
| ckim-dragen | INDEL | D6_15 | HG002complexvar | homalt | 98.2293 | 99.6578 | 96.8412 | 63.9172 | 1165 | 4 | 1165 | 38 | 37 | 97.3684 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.8891 | 94.9885 | 98.8674 | 52.9255 | 3317 | 175 | 3317 | 38 | 38 | 100.0000 | |
| ckim-dragen | SNP | ti | HG002compoundhet | * | 99.7941 | 99.8055 | 99.7828 | 35.8899 | 17444 | 34 | 17457 | 38 | 18 | 47.3684 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m1_e0 | * | 97.9664 | 98.7304 | 97.2141 | 87.0980 | 1322 | 17 | 1326 | 38 | 5 | 13.1579 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e0 | * | 98.0091 | 98.7573 | 97.2721 | 88.0110 | 1351 | 17 | 1355 | 38 | 5 | 13.1579 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | * | 98.0472 | 98.7814 | 97.3239 | 88.0481 | 1378 | 17 | 1382 | 38 | 5 | 13.1579 | |
| ckim-isaac | INDEL | * | segdup | * | 96.6725 | 94.9531 | 98.4553 | 92.8290 | 2427 | 129 | 2422 | 38 | 23 | 60.5263 | |
| ciseli-custom | INDEL | C1_5 | map_siren | * | 0.0000 | 0.0000 | 17.3913 | 96.3978 | 0 | 0 | 8 | 38 | 6 | 15.7895 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 25.7093 | 16.0550 | 64.4860 | 89.9813 | 70 | 366 | 69 | 38 | 23 | 60.5263 | |
| ciseli-custom | INDEL | I1_5 | segdup | homalt | 90.4345 | 89.2178 | 91.6849 | 90.5285 | 422 | 51 | 419 | 38 | 38 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | map_siren | het | 97.7116 | 97.5610 | 97.8628 | 81.6928 | 1640 | 41 | 1740 | 38 | 12 | 31.5789 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0468 | 95.1501 | 99.0206 | 54.5933 | 3708 | 189 | 3842 | 38 | 35 | 92.1053 | |
| cchapple-custom | SNP | ti | * | homalt | 99.9468 | 99.8984 | 99.9953 | 15.1867 | 802222 | 816 | 801552 | 38 | 34 | 89.4737 | |
| astatham-gatk | SNP | ti | map_l150_m1_e0 | het | 85.9873 | 75.6508 | 99.5954 | 82.9552 | 9358 | 3012 | 9354 | 38 | 18 | 47.3684 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.4610 | 97.3722 | 99.5745 | 76.8854 | 8893 | 240 | 8893 | 38 | 10 | 26.3158 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.4610 | 97.3722 | 99.5745 | 76.8854 | 8893 | 240 | 8893 | 38 | 10 | 26.3158 | |
| astatham-gatk | SNP | tv | map_l100_m0_e0 | * | 93.1039 | 87.3962 | 99.6092 | 73.8497 | 9687 | 1397 | 9686 | 38 | 11 | 28.9474 | |