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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
33901-33950 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | * | tech_badpromoters | het | 34.2146 | 28.2051 | 43.4783 | 84.7682 | 11 | 28 | 10 | 13 | 1 | 7.6923 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m1_e0 | homalt | 88.8389 | 81.4189 | 97.7470 | 86.4139 | 482 | 110 | 564 | 13 | 1 | 7.6923 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e0 | homalt | 89.1147 | 81.8331 | 97.8188 | 86.9556 | 500 | 111 | 583 | 13 | 1 | 7.6923 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e1 | homalt | 88.9945 | 81.6129 | 97.8441 | 87.0712 | 506 | 114 | 590 | 13 | 1 | 7.6923 | |
| jmaeng-gatk | SNP | * | map_l250_m1_e0 | * | 68.9230 | 53.4340 | 97.0573 | 96.2285 | 3859 | 3363 | 3859 | 117 | 9 | 7.6923 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m1_e0 | * | 98.1106 | 96.9697 | 99.2786 | 76.3393 | 1792 | 56 | 1789 | 13 | 1 | 7.6923 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m2_e0 | het | 97.9878 | 97.0541 | 98.9396 | 75.7755 | 1219 | 37 | 1213 | 13 | 1 | 7.6923 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m1_e0 | het | 95.2376 | 97.3829 | 93.1848 | 85.5574 | 707 | 19 | 711 | 52 | 4 | 7.6923 | |
| cchapple-custom | INDEL | D1_5 | map_l250_m1_e0 | * | 94.8142 | 97.0760 | 92.6554 | 94.4234 | 166 | 5 | 164 | 13 | 1 | 7.6923 | |
| cchapple-custom | INDEL | D1_5 | map_l250_m1_e0 | het | 93.1984 | 97.2973 | 89.4309 | 94.7682 | 108 | 3 | 110 | 13 | 1 | 7.6923 | |
| ckim-dragen | INDEL | D1_5 | map_l150_m0_e0 | het | 95.6311 | 97.5248 | 93.8095 | 92.1023 | 197 | 5 | 197 | 13 | 1 | 7.6923 | |
| ckim-dragen | INDEL | D1_5 | map_l150_m2_e0 | het | 96.3484 | 97.6654 | 95.0664 | 90.7186 | 502 | 12 | 501 | 26 | 2 | 7.6923 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.6905 | 99.8338 | 99.5476 | 42.3216 | 11414 | 19 | 11441 | 52 | 4 | 7.6923 | |
| ckim-dragen | SNP | * | map_l125_m0_e0 | het | 97.3570 | 98.4523 | 96.2857 | 80.0772 | 12468 | 196 | 12469 | 481 | 37 | 7.6923 | |
| ckim-dragen | SNP | ti | map_l250_m0_e0 | * | 96.5066 | 96.7883 | 96.2264 | 93.0796 | 1326 | 44 | 1326 | 52 | 4 | 7.6923 | |
| bgallagher-sentieon | INDEL | I1_5 | map_siren | het | 99.0779 | 98.9292 | 99.2271 | 81.4696 | 1663 | 18 | 1669 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e0 | * | 89.7493 | 83.4297 | 97.1047 | 92.9146 | 433 | 86 | 436 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 84.1893 | 75.7282 | 94.7791 | 94.2798 | 234 | 75 | 236 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e1 | * | 89.6631 | 83.2392 | 97.1616 | 92.9647 | 442 | 89 | 445 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e1 | het | 84.0230 | 75.3943 | 94.8819 | 94.3278 | 239 | 78 | 241 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 41.6667 | 83.3333 | 27.7778 | 84.0708 | 5 | 1 | 5 | 13 | 1 | 7.6923 | |
| anovak-vg | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 0.0000 | 100.0000 | 0.0000 | 87.6777 | 1 | 0 | 0 | 26 | 2 | 7.6923 | |
| anovak-vg | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 0.0000 | 100.0000 | 0.0000 | 86.9347 | 1 | 0 | 0 | 26 | 2 | 7.6923 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 13.6986 | 9.0909 | 27.7778 | 57.1429 | 6 | 60 | 5 | 13 | 1 | 7.6923 | |
| astatham-gatk | INDEL | D1_5 | map_l150_m0_e0 | * | 96.4056 | 97.2318 | 95.5932 | 92.0227 | 281 | 8 | 282 | 13 | 1 | 7.6923 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.7262 | 94.6148 | 98.9340 | 44.5934 | 2407 | 137 | 2413 | 26 | 2 | 7.6923 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0006 | 75.5556 | 92.0732 | 84.2949 | 544 | 176 | 604 | 52 | 4 | 7.6923 | |
| ckim-isaac | SNP | ti | map_l150_m2_e0 | het | 75.7150 | 61.0434 | 99.6704 | 79.9741 | 7863 | 5018 | 7863 | 26 | 2 | 7.6923 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2074 | 99.1262 | 99.2888 | 51.5248 | 1815 | 16 | 1815 | 13 | 1 | 7.6923 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e0 | * | 77.9188 | 64.0796 | 99.3822 | 82.5443 | 31374 | 17587 | 31369 | 195 | 15 | 7.6923 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | * | 78.0470 | 64.2498 | 99.3903 | 82.5096 | 31794 | 17691 | 31789 | 195 | 15 | 7.6923 | |
| dgrover-gatk | INDEL | * | map_l150_m0_e0 | het | 96.6534 | 97.0674 | 96.2428 | 93.6769 | 331 | 10 | 333 | 13 | 1 | 7.6923 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.1288 | 90.9722 | 95.3901 | 71.8563 | 262 | 26 | 269 | 13 | 1 | 7.6923 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7893 | 96.6821 | 98.9221 | 82.4044 | 1253 | 43 | 1193 | 13 | 1 | 7.6923 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9578 | 97.5323 | 98.3871 | 83.8380 | 830 | 21 | 793 | 13 | 1 | 7.6923 | |
| qzeng-custom | INDEL | C1_5 | HG002complexvar | het | 80.8034 | 71.4286 | 93.0108 | 89.6031 | 5 | 2 | 173 | 13 | 1 | 7.6923 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 51.4512 | 86.6667 | 36.5854 | 95.2982 | 13 | 2 | 15 | 26 | 2 | 7.6923 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m1_e0 | * | 98.0672 | 97.7108 | 98.4262 | 83.5622 | 811 | 19 | 813 | 13 | 1 | 7.6923 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m2_e0 | * | 98.1282 | 97.7830 | 98.4760 | 85.0298 | 838 | 19 | 840 | 13 | 1 | 7.6923 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m2_e1 | * | 98.1563 | 97.8161 | 98.4988 | 85.2244 | 851 | 19 | 853 | 13 | 1 | 7.6923 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.4907 | 97.7292 | 99.2642 | 69.7423 | 28060 | 652 | 28060 | 208 | 16 | 7.6923 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.4907 | 97.7292 | 99.2642 | 69.7423 | 28060 | 652 | 28060 | 208 | 16 | 7.6923 | |
| raldana-dualsentieon | SNP | tv | map_l250_m1_e0 | * | 98.0065 | 97.5066 | 98.5115 | 87.3534 | 2581 | 66 | 2581 | 39 | 3 | 7.6923 | |
| gduggal-snapvard | SNP | ti | map_l150_m0_e0 | * | 89.0696 | 94.6444 | 84.1150 | 85.4263 | 7440 | 421 | 7371 | 1392 | 107 | 7.6868 | |
| jlack-gatk | SNP | * | map_l125_m1_e0 | * | 96.1255 | 98.8638 | 93.5349 | 78.9418 | 44812 | 515 | 44806 | 3097 | 238 | 7.6849 | |
| ckim-gatk | SNP | * | map_l125_m1_e0 | * | 84.2159 | 73.9471 | 97.7967 | 84.1626 | 33518 | 11809 | 33512 | 755 | 58 | 7.6821 | |
| gduggal-snapplat | INDEL | I1_5 | HG002complexvar | * | 77.0714 | 71.7352 | 83.2654 | 65.6966 | 23933 | 9430 | 24301 | 4884 | 375 | 7.6781 | |
| ckim-gatk | SNP | * | map_l125_m2_e1 | * | 84.7700 | 74.7850 | 97.8324 | 85.1204 | 35300 | 11902 | 35294 | 782 | 60 | 7.6726 | |
| gduggal-bwavard | SNP | ti | map_l100_m2_e1 | het | 95.6635 | 97.2933 | 94.0874 | 78.7700 | 30122 | 838 | 29869 | 1877 | 144 | 7.6718 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5883 | 99.8077 | 99.3700 | 59.7371 | 55524 | 107 | 55520 | 352 | 27 | 7.6705 | |