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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25651-25700 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D6_15 | map_l125_m2_e1 | * | 96.4143 | 94.5312 | 98.3740 | 91.7616 | 121 | 7 | 121 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | INDEL | * | map_l100_m2_e1 | * | 79.8823 | 72.1512 | 89.4689 | 91.7596 | 2710 | 1046 | 2948 | 347 | 39 | 11.2392 | |
| gduggal-snapplat | INDEL | D6_15 | map_siren | * | 43.1110 | 29.0766 | 83.3333 | 91.7593 | 148 | 361 | 105 | 21 | 3 | 14.2857 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002complexvar | homalt | 0.0000 | 0.0000 | 98.1132 | 91.7574 | 0 | 0 | 52 | 1 | 1 | 100.0000 | |
| ciseli-custom | SNP | ti | map_l250_m1_e0 | * | 70.0357 | 66.4337 | 74.0506 | 91.7565 | 3042 | 1537 | 3042 | 1066 | 196 | 18.3865 | |
| gduggal-snapfb | INDEL | D6_15 | map_l150_m2_e1 | homalt | 80.7692 | 72.4138 | 91.3043 | 91.7563 | 21 | 8 | 21 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 95.1641 | 92.2330 | 98.2877 | 91.7561 | 285 | 24 | 287 | 5 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l100_m1_e0 | * | 79.6064 | 66.4675 | 99.2196 | 91.7555 | 890 | 449 | 890 | 7 | 2 | 28.5714 | |
| ckim-vqsr | SNP | * | map_l125_m0_e0 | * | 64.0727 | 47.4439 | 98.6485 | 91.7531 | 9197 | 10188 | 9197 | 126 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l150_m2_e1 | hetalt | 94.1176 | 88.8889 | 100.0000 | 91.7526 | 8 | 1 | 8 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 91.9540 | 85.1064 | 100.0000 | 91.7526 | 40 | 7 | 40 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | map_l150_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 91.7526 | 8 | 0 | 8 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D16_PLUS | map_l100_m2_e0 | homalt | 87.5000 | 87.5000 | 87.5000 | 91.7526 | 14 | 2 | 14 | 2 | 1 | 50.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | map_siren | het | 90.0217 | 87.1795 | 93.0556 | 91.7526 | 68 | 10 | 67 | 5 | 3 | 60.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l150_m2_e1 | hetalt | 82.3529 | 77.7778 | 87.5000 | 91.7526 | 7 | 2 | 7 | 1 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 38.9269 | 92.7273 | 24.6341 | 91.7522 | 102 | 8 | 101 | 309 | 13 | 4.2071 | |
| ltrigg-rtg2 | INDEL | * | map_l250_m1_e0 | homalt | 98.1308 | 96.3303 | 100.0000 | 91.7518 | 105 | 4 | 105 | 0 | 0 | ||
| dgrover-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 98.0498 | 97.4110 | 98.6971 | 91.7517 | 301 | 8 | 303 | 4 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 79.8224 | 95.4545 | 68.5897 | 91.7504 | 105 | 5 | 107 | 49 | 27 | 55.1020 | |
| bgallagher-sentieon | INDEL | I6_15 | map_l125_m1_e0 | * | 93.2039 | 90.5660 | 96.0000 | 91.7492 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | * | map_l150_m2_e0 | het | 95.2620 | 94.1501 | 96.4004 | 91.7487 | 853 | 53 | 857 | 32 | 4 | 12.5000 | |
| egarrison-hhga | INDEL | * | tech_badpromoters | * | 98.6842 | 98.6842 | 98.6842 | 91.7481 | 75 | 1 | 75 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 88.8889 | 84.2105 | 94.1176 | 91.7476 | 16 | 3 | 16 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l150_m2_e1 | het | 72.7273 | 75.0000 | 70.5882 | 91.7476 | 12 | 4 | 12 | 5 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | map_l125_m1_e0 | * | 90.5660 | 88.8889 | 92.3077 | 91.7460 | 24 | 3 | 24 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 91.7647 | 95.1220 | 88.6364 | 91.7448 | 39 | 2 | 39 | 5 | 4 | 80.0000 | |
| anovak-vg | SNP | ti | segdup | * | 97.8325 | 97.8809 | 97.7842 | 91.7442 | 19123 | 414 | 19020 | 431 | 163 | 37.8190 | |
| anovak-vg | INDEL | I6_15 | map_l150_m2_e0 | het | 54.4218 | 53.3333 | 55.5556 | 91.7431 | 8 | 7 | 10 | 8 | 1 | 12.5000 | |
| ltrigg-rtg2 | INDEL | C6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 100.0000 | 91.7431 | 0 | 0 | 45 | 0 | 0 | ||
| ckim-gatk | SNP | ti | map_l150_m1_e0 | hetalt | 75.0000 | 60.0000 | 100.0000 | 91.7431 | 9 | 6 | 9 | 0 | 0 | ||
| eyeh-varpipe | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 100.0000 | 91.7431 | 0 | 0 | 9 | 0 | 0 | ||
| ckim-isaac | INDEL | I1_5 | map_l100_m0_e0 | hetalt | 88.8889 | 88.8889 | 88.8889 | 91.7431 | 8 | 1 | 8 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | map_l150_m0_e0 | het | 96.0441 | 95.6012 | 96.4912 | 91.7411 | 326 | 15 | 330 | 12 | 2 | 16.6667 | |
| gduggal-bwaplat | SNP | ti | map_l150_m2_e1 | het | 75.2791 | 60.6685 | 99.1595 | 91.7406 | 7896 | 5119 | 7904 | 67 | 22 | 32.8358 | |
| asubramanian-gatk | INDEL | * | map_l125_m1_e0 | het | 88.1603 | 83.0712 | 93.9138 | 91.7400 | 1109 | 226 | 1111 | 72 | 7 | 9.7222 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e1 | * | 86.9758 | 95.2325 | 80.0366 | 91.7380 | 4834 | 242 | 4807 | 1199 | 73 | 6.0884 | |
| ckim-vqsr | INDEL | * | map_l150_m0_e0 | homalt | 99.0881 | 99.3902 | 98.7879 | 91.7376 | 163 | 1 | 163 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_l150_m1_e0 | * | 64.9686 | 48.5062 | 98.3460 | 91.7373 | 5293 | 5619 | 5292 | 89 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m2_e1 | * | 80.9816 | 77.6471 | 84.6154 | 91.7373 | 66 | 19 | 66 | 12 | 12 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 98.7654 | 97.5610 | 100.0000 | 91.7355 | 40 | 1 | 40 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | segdup | homalt | 68.8866 | 95.9831 | 53.7209 | 91.7355 | 454 | 19 | 462 | 398 | 376 | 94.4724 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 98.7654 | 97.5610 | 100.0000 | 91.7355 | 40 | 1 | 40 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | map_l100_m1_e0 | het | 91.9355 | 90.4762 | 93.4426 | 91.7344 | 114 | 12 | 114 | 8 | 2 | 25.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l150_m2_e1 | het | 95.9849 | 95.7447 | 96.2264 | 91.7317 | 45 | 2 | 51 | 2 | 1 | 50.0000 | |
| eyeh-varpipe | INDEL | D6_15 | segdup | * | 76.3001 | 73.2984 | 79.5580 | 91.7314 | 140 | 51 | 144 | 37 | 36 | 97.2973 | |
| ndellapenna-hhga | INDEL | D16_PLUS | map_l125_m0_e0 | het | 90.0000 | 100.0000 | 81.8182 | 91.7293 | 9 | 0 | 9 | 2 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | map_l125_m2_e1 | * | 53.8462 | 46.6667 | 63.6364 | 91.7293 | 7 | 8 | 7 | 4 | 3 | 75.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l125_m2_e0 | * | 89.7959 | 83.0189 | 97.7778 | 91.7279 | 44 | 9 | 44 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | map_l125_m2_e0 | * | 96.0000 | 95.2381 | 96.7742 | 91.7278 | 120 | 6 | 120 | 4 | 1 | 25.0000 | |
| gduggal-bwafb | INDEL | D6_15 | map_l125_m2_e0 | homalt | 95.7746 | 94.4444 | 97.1429 | 91.7258 | 34 | 2 | 34 | 1 | 1 | 100.0000 | |