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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53201-53250 / 86044 show all | |||||||||||||||
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 66.9076 | 92.2101 | 52.5013 | 83.8765 | 1018 | 86 | 1039 | 940 | 100 | 10.6383 | |
| jlack-gatk | INDEL | * | map_l100_m2_e1 | * | 95.3410 | 97.9233 | 92.8914 | 88.4293 | 3678 | 78 | 3685 | 282 | 30 | 10.6383 | |
| ckim-gatk | INDEL | * | segdup | * | 97.7045 | 99.0219 | 96.4218 | 95.7792 | 2531 | 25 | 2533 | 94 | 10 | 10.6383 | |
| ckim-dragen | SNP | * | map_l100_m1_e0 | * | 98.6742 | 99.2901 | 98.0660 | 67.7530 | 71889 | 514 | 71900 | 1418 | 151 | 10.6488 | |
| hfeng-pmm3 | SNP | * | map_l150_m1_e0 | het | 99.2744 | 99.1820 | 99.3670 | 75.4908 | 19158 | 158 | 19152 | 122 | 13 | 10.6557 | |
| ndellapenna-hhga | SNP | tv | * | het | 99.8309 | 99.7335 | 99.9285 | 20.7977 | 590119 | 1577 | 590138 | 422 | 45 | 10.6635 | |
| ckim-gatk | SNP | ti | map_l125_m2_e1 | * | 85.1950 | 75.2331 | 98.1978 | 84.5085 | 22998 | 7571 | 22994 | 422 | 45 | 10.6635 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6551 | 99.1981 | 98.1180 | 73.7453 | 19422 | 157 | 19551 | 375 | 40 | 10.6667 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6551 | 99.1981 | 98.1180 | 73.7453 | 19422 | 157 | 19551 | 375 | 40 | 10.6667 | |
| hfeng-pmm3 | SNP | ti | map_l150_m2_e1 | het | 99.3308 | 99.2393 | 99.4225 | 76.8259 | 12916 | 99 | 12912 | 75 | 8 | 10.6667 | |
| asubramanian-gatk | INDEL | * | map_l125_m1_e0 | * | 91.1206 | 86.6635 | 96.0609 | 96.9394 | 1826 | 281 | 1829 | 75 | 8 | 10.6667 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.4591 | 99.4895 | 99.4288 | 67.6195 | 30984 | 159 | 30984 | 178 | 19 | 10.6742 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.4591 | 99.4895 | 99.4288 | 67.6195 | 30984 | 159 | 30984 | 178 | 19 | 10.6742 | |
| gduggal-snapfb | SNP | tv | HG002complexvar | * | 98.7938 | 99.5787 | 98.0211 | 25.3464 | 245118 | 1037 | 245440 | 4955 | 529 | 10.6761 | |
| ckim-dragen | SNP | ti | map_l150_m2_e0 | het | 97.5203 | 98.7579 | 96.3134 | 81.5763 | 12721 | 160 | 12723 | 487 | 52 | 10.6776 | |
| ckim-gatk | SNP | ti | map_l125_m2_e0 | * | 85.0542 | 75.0248 | 98.1789 | 84.5122 | 22701 | 7557 | 22697 | 421 | 45 | 10.6888 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 28.9733 | 87.0161 | 0 | 0 | 206 | 505 | 54 | 10.6931 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 97.7394 | 98.7952 | 96.7059 | 89.6278 | 820 | 10 | 822 | 28 | 3 | 10.7143 | |
| ckim-dragen | INDEL | D16_PLUS | map_siren | * | 87.4390 | 93.0070 | 82.5000 | 95.1981 | 133 | 10 | 132 | 28 | 3 | 10.7143 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m2_e0 | * | 96.1629 | 97.2003 | 95.1473 | 85.5786 | 1111 | 32 | 1098 | 56 | 6 | 10.7143 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m2_e1 | * | 96.2092 | 97.2342 | 95.2055 | 85.6546 | 1125 | 32 | 1112 | 56 | 6 | 10.7143 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7691 | 99.9184 | 99.6202 | 33.3544 | 7349 | 6 | 7345 | 28 | 3 | 10.7143 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 90.9054 | 87.1795 | 94.9640 | 88.1323 | 1054 | 155 | 1056 | 56 | 6 | 10.7143 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3297 | 98.9174 | 99.7455 | 57.3296 | 10964 | 120 | 10972 | 28 | 3 | 10.7143 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 12.8639 | 7.7236 | 38.4615 | 59.1928 | 19 | 227 | 35 | 56 | 6 | 10.7143 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5239 | 99.8551 | 99.1949 | 41.9366 | 3445 | 5 | 3450 | 28 | 3 | 10.7143 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2813 | 99.8597 | 98.7097 | 43.7241 | 2135 | 3 | 2142 | 28 | 3 | 10.7143 | |
| eyeh-varpipe | SNP | tv | map_l250_m1_e0 | * | 98.7000 | 99.5089 | 97.9042 | 90.2532 | 2634 | 13 | 2616 | 56 | 6 | 10.7143 | |
| ckim-vqsr | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5289 | 99.3598 | 99.6985 | 56.1737 | 27780 | 179 | 27779 | 84 | 9 | 10.7143 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1998 | 96.7133 | 99.7327 | 79.6799 | 10446 | 355 | 10447 | 28 | 3 | 10.7143 | |
| hfeng-pmm2 | SNP | ti | map_l250_m0_e0 | het | 97.6596 | 98.2869 | 97.0402 | 94.0240 | 918 | 16 | 918 | 28 | 3 | 10.7143 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m2_e0 | * | 97.6916 | 98.5998 | 96.8000 | 90.6836 | 845 | 12 | 847 | 28 | 3 | 10.7143 | |
| jmaeng-gatk | SNP | ti | map_l150_m2_e0 | het | 85.2876 | 76.1276 | 96.9535 | 90.1394 | 9806 | 3075 | 9802 | 308 | 33 | 10.7143 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 82.9954 | 90.1961 | 76.8595 | 95.2900 | 92 | 10 | 93 | 28 | 3 | 10.7143 | |
| rpoplin-dv42 | SNP | ti | segdup | het | 99.7339 | 99.7007 | 99.7671 | 89.8249 | 11994 | 36 | 11992 | 28 | 3 | 10.7143 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e0 | * | 77.4922 | 85.9848 | 70.5263 | 85.7250 | 227 | 37 | 268 | 112 | 12 | 10.7143 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e0 | het | 77.9177 | 88.5496 | 69.5652 | 87.5000 | 116 | 15 | 192 | 84 | 9 | 10.7143 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e0 | homalt | 79.7203 | 87.6923 | 73.0769 | 77.0925 | 57 | 8 | 76 | 28 | 3 | 10.7143 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e1 | homalt | 80.0247 | 88.0597 | 73.3333 | 77.5641 | 59 | 8 | 77 | 28 | 3 | 10.7143 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 38.3331 | 34.4623 | 43.1834 | 76.0195 | 2381 | 4528 | 2420 | 3184 | 342 | 10.7412 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8377 | 98.6970 | 98.9788 | 83.4427 | 9014 | 119 | 9014 | 93 | 10 | 10.7527 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8377 | 98.6970 | 98.9788 | 83.4427 | 9014 | 119 | 9014 | 93 | 10 | 10.7527 | |
| jlack-gatk | INDEL | I1_5 | map_siren | * | 97.8278 | 98.7022 | 96.9687 | 83.0880 | 2966 | 39 | 2975 | 93 | 10 | 10.7527 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | * | 99.4903 | 99.6045 | 99.3764 | 68.9155 | 25183 | 100 | 25179 | 158 | 17 | 10.7595 | |
| ckim-dragen | SNP | ti | map_l150_m1_e0 | het | 97.4739 | 98.7146 | 96.2639 | 80.0619 | 12211 | 159 | 12213 | 474 | 51 | 10.7595 | |
| ckim-dragen | INDEL | * | map_l125_m1_e0 | het | 95.7558 | 96.3296 | 95.1887 | 89.3639 | 1286 | 49 | 1286 | 65 | 7 | 10.7692 | |
| ckim-dragen | INDEL | * | segdup | * | 97.1040 | 99.1784 | 95.1146 | 95.2650 | 2535 | 21 | 2531 | 130 | 14 | 10.7692 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e0 | * | 96.8390 | 98.3187 | 95.4031 | 87.7576 | 1345 | 23 | 1349 | 65 | 7 | 10.7692 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e1 | * | 96.8991 | 98.3513 | 95.4892 | 87.8016 | 1372 | 23 | 1376 | 65 | 7 | 10.7692 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 93.5488 | 98.1667 | 89.3458 | 72.6223 | 2945 | 55 | 3346 | 399 | 43 | 10.7769 | |