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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71551-71600 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.8842 | 99.8788 | 94.0639 | 71.6321 | 824 | 1 | 824 | 52 | 50 | 96.1538 | |
| anovak-vg | SNP | tv | func_cds | * | 98.2741 | 97.7580 | 98.7957 | 36.4158 | 4273 | 98 | 4266 | 52 | 32 | 61.5385 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.8059 | 94.1587 | 99.6062 | 31.3760 | 12960 | 804 | 13154 | 52 | 51 | 98.0769 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.7892 | 94.1206 | 99.6136 | 34.1069 | 13207 | 825 | 13406 | 52 | 51 | 98.0769 | |
| bgallagher-sentieon | INDEL | * | HG002compoundhet | hetalt | 96.0304 | 92.5536 | 99.7785 | 50.2300 | 23305 | 1875 | 23427 | 52 | 52 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2548 | 94.9731 | 99.6489 | 58.8526 | 14642 | 775 | 14759 | 52 | 52 | 100.0000 | |
| asubramanian-gatk | SNP | tv | HG002complexvar | * | 98.0754 | 96.2442 | 99.9776 | 22.6117 | 236907 | 9245 | 236824 | 53 | 18 | 33.9623 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.5292 | 96.8794 | 96.1816 | 74.8551 | 1366 | 44 | 1335 | 53 | 43 | 81.1321 | |
| astatham-gatk | SNP | ti | map_l125_m1_e0 | * | 91.1797 | 83.9407 | 99.7852 | 74.5658 | 24624 | 4711 | 24620 | 53 | 29 | 54.7170 | |
| astatham-gatk | SNP | ti | map_l125_m2_e0 | * | 91.2512 | 84.0571 | 99.7920 | 76.0047 | 25434 | 4824 | 25430 | 53 | 29 | 54.7170 | |
| astatham-gatk | SNP | ti | map_l125_m2_e1 | * | 91.2494 | 84.0525 | 99.7941 | 76.0425 | 25694 | 4875 | 25690 | 53 | 29 | 54.7170 | |
| astatham-gatk | SNP | tv | map_siren | * | 92.9445 | 86.9192 | 99.8674 | 62.0464 | 39922 | 6008 | 39914 | 53 | 21 | 39.6226 | |
| asubramanian-gatk | INDEL | C6_15 | * | homalt | 0.0000 | 0.0000 | 79.2157 | 0 | 0 | 0 | 53 | 0 | 0.0000 | ||
| anovak-vg | INDEL | D1_5 | map_l250_m2_e0 | het | 72.6137 | 80.9917 | 65.8065 | 96.1529 | 98 | 23 | 102 | 53 | 22 | 41.5094 | |
| anovak-vg | INDEL | D1_5 | segdup | het | 93.3306 | 94.0751 | 92.5978 | 95.1126 | 651 | 41 | 663 | 53 | 34 | 64.1509 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.5318 | 97.5161 | 97.5474 | 64.9131 | 2120 | 54 | 2108 | 53 | 24 | 45.2830 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 92.5148 | 92.3810 | 92.6491 | 58.3237 | 679 | 56 | 668 | 53 | 51 | 96.2264 | |
| gduggal-bwaplat | SNP | tv | map_l125_m1_e0 | * | 73.1779 | 57.8921 | 99.4316 | 88.1943 | 9272 | 6744 | 9272 | 53 | 13 | 24.5283 | |
| gduggal-bwaplat | SNP | tv | map_l125_m1_e0 | het | 78.1031 | 64.4085 | 99.1939 | 89.8771 | 6522 | 3604 | 6522 | 53 | 13 | 24.5283 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m2_e0 | * | 94.3414 | 94.8658 | 93.8228 | 88.8990 | 813 | 44 | 805 | 53 | 23 | 43.3962 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m2_e1 | * | 94.4260 | 94.9425 | 93.9150 | 88.9970 | 826 | 44 | 818 | 53 | 23 | 43.3962 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 92.7883 | 86.7091 | 99.7841 | 61.8573 | 24504 | 3756 | 24493 | 53 | 43 | 81.1321 | |
| gduggal-bwaplat | INDEL | * | map_siren | * | 85.3786 | 75.0202 | 99.0556 | 89.6958 | 5559 | 1851 | 5559 | 53 | 26 | 49.0566 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 69.0451 | 54.2606 | 94.9038 | 89.2027 | 987 | 832 | 987 | 53 | 38 | 71.6981 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 79.8601 | 67.5701 | 97.6148 | 72.4420 | 2169 | 1041 | 2169 | 53 | 50 | 94.3396 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 69.0451 | 54.2606 | 94.9038 | 89.2027 | 987 | 832 | 987 | 53 | 38 | 71.6981 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 41.8443 | 31.2155 | 63.4483 | 59.6100 | 113 | 249 | 92 | 53 | 49 | 92.4528 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.9380 | 99.2225 | 98.6552 | 35.2022 | 3956 | 31 | 3888 | 53 | 17 | 32.0755 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.1991 | 98.2644 | 96.1566 | 80.7160 | 1472 | 26 | 1326 | 53 | 19 | 35.8491 | |
| eyeh-varpipe | SNP | tv | map_l250_m1_e0 | het | 98.2708 | 99.4964 | 97.0751 | 90.7442 | 1778 | 9 | 1759 | 53 | 4 | 7.5472 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3222 | 99.1249 | 99.5202 | 58.6425 | 10987 | 97 | 10994 | 53 | 8 | 15.0943 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 70.7998 | 95.6522 | 56.1983 | 91.6031 | 66 | 3 | 68 | 53 | 18 | 33.9623 | |
| jpowers-varprowl | SNP | ti | segdup | homalt | 99.6282 | 99.9600 | 99.2985 | 89.1736 | 7502 | 3 | 7502 | 53 | 36 | 67.9245 | |
| jpowers-varprowl | SNP | tv | segdup | homalt | 99.1421 | 99.9074 | 98.3886 | 91.4237 | 3235 | 3 | 3236 | 53 | 29 | 54.7170 | |
| jli-custom | INDEL | I1_5 | HG002compoundhet | het | 95.4593 | 97.4118 | 93.5835 | 85.3129 | 828 | 22 | 773 | 53 | 44 | 83.0189 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | * | * | 96.8429 | 94.6197 | 99.1732 | 57.6142 | 6419 | 365 | 6357 | 53 | 36 | 67.9245 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002compoundhet | homalt | 10.1695 | 100.0000 | 5.3571 | 68.1818 | 3 | 0 | 3 | 53 | 52 | 98.1132 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | homalt | 50.4818 | 93.5484 | 34.5679 | 64.6288 | 29 | 2 | 28 | 53 | 52 | 98.1132 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m1_e0 | * | 99.1074 | 98.4080 | 99.8167 | 62.4199 | 28868 | 467 | 28869 | 53 | 19 | 35.8491 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m1_e0 | het | 98.9516 | 98.2617 | 99.6512 | 54.6439 | 15149 | 268 | 15144 | 53 | 5 | 9.4340 | |
| jli-custom | SNP | * | map_l250_m1_e0 | het | 97.5495 | 96.2776 | 98.8555 | 86.3033 | 4578 | 177 | 4578 | 53 | 23 | 43.3962 | |
| jli-custom | SNP | ti | * | homalt | 99.9866 | 99.9797 | 99.9934 | 15.9268 | 802875 | 163 | 802870 | 53 | 42 | 79.2453 | |
| jmaeng-gatk | INDEL | * | HG002compoundhet | hetalt | 95.3319 | 91.2708 | 99.7711 | 50.5352 | 22982 | 2198 | 23098 | 53 | 53 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.2177 | 93.0272 | 99.6348 | 58.3838 | 14342 | 1075 | 14459 | 53 | 52 | 98.1132 | |
| jmaeng-gatk | INDEL | I1_5 | map_siren | het | 97.6442 | 98.3938 | 96.9060 | 85.7250 | 1654 | 27 | 1660 | 53 | 5 | 9.4340 | |
| jmaeng-gatk | INDEL | I6_15 | HG002compoundhet | het | 84.9309 | 97.1154 | 75.4630 | 84.4268 | 202 | 6 | 163 | 53 | 53 | 100.0000 | |
| egarrison-hhga | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.5362 | 98.1948 | 98.8800 | 67.3655 | 4678 | 86 | 4679 | 53 | 21 | 39.6226 | |
| egarrison-hhga | SNP | tv | HG002compoundhet | * | 98.7023 | 98.0164 | 99.3979 | 47.2112 | 8746 | 177 | 8749 | 53 | 39 | 73.5849 | |
| eyeh-varpipe | INDEL | C1_5 | HG002complexvar | homalt | 0.0000 | 0.0000 | 93.9636 | 77.8451 | 0 | 0 | 825 | 53 | 38 | 71.6981 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 66.0256 | 95.9130 | 0 | 0 | 103 | 53 | 44 | 83.0189 | |