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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
7751-7800 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 56.2079 | 45.3358 | 73.9394 | 68.5115 | 243 | 293 | 244 | 86 | 85 | 98.8372 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.1967 | 97.8663 | 98.5292 | 39.4229 | 7293 | 159 | 7302 | 109 | 85 | 77.9817 | |
| qzeng-custom | SNP | ti | map_l250_m0_e0 | het | 67.5985 | 56.9593 | 83.1250 | 98.4261 | 532 | 402 | 532 | 108 | 85 | 78.7037 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.3248 | 99.2165 | 99.4333 | 71.0574 | 16842 | 133 | 16845 | 96 | 85 | 88.5417 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.3248 | 99.2165 | 99.4333 | 71.0574 | 16842 | 133 | 16845 | 96 | 85 | 88.5417 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.6456 | 97.0042 | 90.5118 | 51.1256 | 2299 | 71 | 2299 | 241 | 85 | 35.2697 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002complexvar | homalt | 84.2050 | 94.4637 | 75.9563 | 78.1493 | 273 | 16 | 278 | 88 | 85 | 96.5909 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 66.6667 | 100.0000 | 50.0000 | 60.4938 | 22 | 0 | 96 | 96 | 85 | 88.5417 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 91.8644 | 98.7250 | 85.8954 | 82.3891 | 542 | 7 | 542 | 89 | 85 | 95.5056 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e1 | het | 94.4053 | 97.9293 | 91.1260 | 92.3124 | 5155 | 109 | 5155 | 502 | 85 | 16.9323 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 71.1668 | 93.6709 | 57.3812 | 87.0357 | 1332 | 90 | 1376 | 1022 | 85 | 8.3170 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 35.0458 | 95.2883 | 21.4714 | 85.0675 | 1355 | 67 | 1398 | 5113 | 85 | 1.6624 | |
| gduggal-snapvard | SNP | tv | map_l100_m0_e0 | * | 91.8069 | 96.6258 | 87.4458 | 78.2460 | 10710 | 374 | 10685 | 1534 | 85 | 5.5411 | |
| rpoplin-dv42 | SNP | ti | map_l100_m0_e0 | * | 99.1759 | 98.9481 | 99.4047 | 66.3363 | 21542 | 229 | 21539 | 129 | 85 | 65.8915 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.9183 | 99.1694 | 87.4085 | 51.4225 | 597 | 5 | 597 | 86 | 85 | 98.8372 | |
| raldana-dualsentieon | INDEL | I16_PLUS | * | * | 96.7701 | 95.1388 | 98.4583 | 67.0904 | 6067 | 310 | 6067 | 95 | 85 | 89.4737 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 20.1854 | 11.4278 | 86.3881 | 77.1411 | 437 | 3387 | 641 | 101 | 85 | 84.1584 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 83.7423 | 78.1955 | 90.1361 | 42.6621 | 1040 | 290 | 1060 | 116 | 85 | 73.2759 | |
| bgallagher-sentieon | INDEL | I16_PLUS | HG002compoundhet | homalt | 6.5934 | 100.0000 | 3.4091 | 71.4286 | 3 | 0 | 3 | 85 | 85 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | het | 94.0512 | 98.4706 | 90.0115 | 86.3970 | 837 | 13 | 784 | 87 | 85 | 97.7011 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0508 | 99.8948 | 98.2209 | 50.1958 | 4748 | 5 | 4748 | 86 | 85 | 98.8372 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.6261 | 95.2133 | 90.1758 | 75.1797 | 915 | 46 | 872 | 95 | 85 | 89.4737 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.7578 | 95.2969 | 96.2233 | 58.1854 | 4093 | 202 | 4102 | 161 | 85 | 52.7950 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | * | 99.1020 | 98.6275 | 99.5810 | 54.4390 | 32266 | 449 | 32088 | 135 | 85 | 62.9630 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.0016 | 99.3355 | 87.4269 | 52.3677 | 598 | 4 | 598 | 86 | 85 | 98.8372 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 90.0260 | 94.5355 | 85.9272 | 79.6359 | 519 | 30 | 519 | 85 | 85 | 100.0000 | |
| jpowers-varprowl | SNP | * | map_l250_m1_e0 | het | 93.2189 | 93.6698 | 92.7723 | 92.0061 | 4454 | 301 | 4454 | 347 | 85 | 24.4957 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.9634 | 99.6055 | 77.1689 | 87.2477 | 505 | 2 | 507 | 150 | 85 | 56.6667 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | het | 97.5431 | 99.0503 | 96.0810 | 78.7734 | 3129 | 30 | 2893 | 118 | 85 | 72.0339 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.0352 | 98.6256 | 93.5774 | 85.8273 | 1794 | 25 | 1559 | 107 | 85 | 79.4393 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.0352 | 98.6256 | 93.5774 | 85.8273 | 1794 | 25 | 1559 | 107 | 85 | 79.4393 | |
| ckim-dragen | INDEL | I16_PLUS | * | homalt | 97.0983 | 99.6797 | 94.6472 | 70.1850 | 1556 | 5 | 1556 | 88 | 85 | 96.5909 | |
| ckim-dragen | INDEL | I16_PLUS | HG002compoundhet | * | 93.5490 | 91.3672 | 95.8374 | 52.5778 | 1958 | 185 | 1957 | 85 | 85 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.6596 | 99.6701 | 97.6694 | 53.9900 | 3626 | 12 | 3604 | 86 | 85 | 98.8372 | |
| cchapple-custom | INDEL | I16_PLUS | * | * | 97.5144 | 96.5971 | 98.4493 | 68.4041 | 6160 | 217 | 6666 | 105 | 85 | 80.9524 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.7631 | 99.4231 | 94.2417 | 48.2590 | 3964 | 23 | 3977 | 243 | 84 | 34.5679 | |
| ckim-dragen | INDEL | D16_PLUS | * | homalt | 97.0588 | 99.4681 | 94.7635 | 72.2066 | 1683 | 9 | 1683 | 93 | 84 | 90.3226 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.0496 | 99.2794 | 93.0233 | 76.1666 | 1240 | 9 | 1240 | 93 | 84 | 90.3226 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.0496 | 99.2794 | 93.0233 | 76.1666 | 1240 | 9 | 1240 | 93 | 84 | 90.3226 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3332 | 99.5580 | 99.1095 | 50.6288 | 10361 | 46 | 10350 | 93 | 84 | 90.3226 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | * | 89.2398 | 81.7300 | 98.2693 | 78.3708 | 59175 | 13228 | 59164 | 1042 | 84 | 8.0614 | |
| ckim-gatk | SNP | tv | * | * | 99.5705 | 99.3991 | 99.7425 | 27.2376 | 963863 | 5827 | 963776 | 2488 | 84 | 3.3762 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 21.3429 | 95.1903 | 0 | 0 | 89 | 328 | 84 | 25.6098 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.8043 | 99.9450 | 97.6894 | 60.7922 | 3636 | 2 | 3636 | 86 | 84 | 97.6744 | |
| rpoplin-dv42 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.6681 | 94.0715 | 99.4120 | 57.9684 | 14503 | 914 | 14541 | 86 | 84 | 97.6744 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.3151 | 97.0053 | 97.6268 | 51.2109 | 1652 | 51 | 5389 | 131 | 84 | 64.1221 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.5217 | 98.2474 | 96.8067 | 41.4913 | 6615 | 118 | 10095 | 333 | 84 | 25.2252 | |
| mlin-fermikit | INDEL | I16_PLUS | * | homalt | 93.7946 | 93.2095 | 94.3871 | 67.1262 | 1455 | 106 | 1463 | 87 | 84 | 96.5517 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.0270 | 99.5781 | 96.5235 | 48.1882 | 2360 | 10 | 2360 | 85 | 84 | 98.8235 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 76.5743 | 94.4099 | 64.4068 | 35.1648 | 152 | 9 | 152 | 84 | 84 | 100.0000 | |