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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
27751-27800 / 86044 show all | |||||||||||||||
| mlin-fermikit | SNP | * | map_l100_m0_e0 | het | 57.3538 | 40.4669 | 98.4278 | 57.0061 | 8581 | 12624 | 8577 | 137 | 4 | 2.9197 | |
| dgrover-gatk | SNP | tv | map_l150_m1_e0 | het | 98.7950 | 99.1650 | 98.4277 | 80.3450 | 6888 | 58 | 6886 | 110 | 20 | 18.1818 | |
| raldana-dualsentieon | SNP | tv | map_l150_m2_e1 | het | 98.6349 | 98.8432 | 98.4275 | 78.2306 | 7263 | 85 | 7261 | 116 | 1 | 0.8621 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2746 | 98.1228 | 98.4270 | 77.7694 | 92676 | 1773 | 96110 | 1536 | 892 | 58.0729 | |
| hfeng-pmm3 | INDEL | * | map_l125_m1_e0 | het | 98.2769 | 98.1273 | 98.4270 | 85.5800 | 1310 | 25 | 1314 | 21 | 3 | 14.2857 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2070 | 100.0000 | 98.4266 | 73.0316 | 564 | 0 | 563 | 9 | 9 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | * | * | 97.2630 | 96.1267 | 98.4265 | 70.8795 | 6130 | 247 | 6130 | 98 | 83 | 84.6939 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e0 | * | 97.9323 | 97.4432 | 98.4263 | 99.0377 | 1372 | 36 | 1376 | 22 | 10 | 45.4545 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9984 | 97.5741 | 98.4263 | 73.5027 | 724 | 18 | 688 | 11 | 5 | 45.4545 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9984 | 97.5741 | 98.4263 | 73.4018 | 724 | 18 | 688 | 11 | 5 | 45.4545 | |
| 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 | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.0392 | 97.6562 | 98.4252 | 84.5998 | 375 | 9 | 375 | 6 | 2 | 33.3333 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.7836 | 97.1503 | 98.4252 | 91.2111 | 375 | 11 | 375 | 6 | 4 | 66.6667 | |
| egarrison-hhga | INDEL | D1_5 | map_l125_m2_e0 | * | 98.4252 | 98.4252 | 98.4252 | 86.5939 | 1125 | 18 | 1125 | 18 | 5 | 27.7778 | |
| hfeng-pmm2 | SNP | * | map_l250_m0_e0 | homalt | 98.8924 | 99.3641 | 98.4252 | 92.6877 | 625 | 4 | 625 | 10 | 5 | 50.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l150_m1_e0 | * | 98.4221 | 98.4190 | 98.4252 | 87.6729 | 498 | 8 | 500 | 8 | 2 | 25.0000 | |
| hfeng-pmm1 | SNP | * | map_l250_m0_e0 | homalt | 98.8924 | 99.3641 | 98.4252 | 92.6624 | 625 | 4 | 625 | 10 | 5 | 50.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e1 | het | 98.2280 | 98.0315 | 98.4252 | 88.1750 | 498 | 10 | 500 | 8 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 98.4252 | 95.8846 | 0 | 0 | 125 | 2 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D16_PLUS | * | homalt | 88.9191 | 81.0875 | 98.4252 | 54.0612 | 1372 | 320 | 1375 | 22 | 6 | 27.2727 | |
| hfeng-pmm1 | INDEL | * | map_l125_m0_e0 | het | 96.8885 | 95.4003 | 98.4238 | 87.4146 | 560 | 27 | 562 | 9 | 1 | 11.1111 | |
| dgrover-gatk | SNP | tv | map_l150_m0_e0 | * | 98.5887 | 98.7542 | 98.4237 | 82.7837 | 4122 | 52 | 4121 | 66 | 10 | 15.1515 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6773 | 98.9323 | 98.4237 | 61.2579 | 55037 | 594 | 55072 | 882 | 34 | 3.8549 | |
| raldana-dualsentieon | SNP | ti | map_l150_m0_e0 | * | 98.4611 | 98.4989 | 98.4234 | 78.1788 | 7743 | 118 | 7741 | 124 | 5 | 4.0323 | |
| ckim-dragen | SNP | tv | map_siren | * | 98.9465 | 99.4753 | 98.4233 | 61.5086 | 45689 | 241 | 45694 | 732 | 69 | 9.4262 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.5345 | 98.6462 | 98.4232 | 60.5868 | 2696 | 37 | 2684 | 43 | 41 | 95.3488 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.8831 | 89.7436 | 98.4229 | 41.9180 | 3990 | 456 | 10235 | 164 | 145 | 88.4146 | |
| hfeng-pmm3 | SNP | * | map_l250_m0_e0 | homalt | 98.8124 | 99.2051 | 98.4227 | 92.6442 | 624 | 5 | 624 | 10 | 5 | 50.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.3321 | 96.2662 | 98.4219 | 60.3556 | 1186 | 46 | 1185 | 19 | 18 | 94.7368 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.8600 | 97.3046 | 98.4218 | 73.5584 | 722 | 20 | 686 | 11 | 5 | 45.4545 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.7864 | 99.1544 | 98.4212 | 63.6442 | 8325 | 71 | 8291 | 133 | 121 | 90.9774 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m1_e0 | homalt | 96.9151 | 95.4545 | 98.4211 | 81.2808 | 189 | 9 | 187 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m0_e0 | het | 77.0340 | 63.2826 | 98.4211 | 94.5205 | 374 | 217 | 374 | 6 | 1 | 16.6667 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 89.4737 | 82.0175 | 98.4211 | 51.7154 | 748 | 164 | 748 | 12 | 4 | 33.3333 | |
| gduggal-bwaplat | SNP | tv | HG002complexvar | het | 97.0873 | 95.7892 | 98.4210 | 25.5027 | 144384 | 6347 | 144674 | 2321 | 283 | 12.1930 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.4514 | 96.5009 | 98.4209 | 44.2767 | 6481 | 235 | 7230 | 116 | 68 | 58.6207 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.2031 | 96.0157 | 98.4203 | 68.4990 | 5374 | 223 | 5358 | 86 | 74 | 86.0465 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.6568 | 96.9051 | 98.4202 | 76.2358 | 1910 | 61 | 1869 | 30 | 19 | 63.3333 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.6568 | 96.9051 | 98.4202 | 76.2358 | 1910 | 61 | 1869 | 30 | 19 | 63.3333 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5508 | 96.6967 | 98.4202 | 87.9726 | 644 | 22 | 623 | 10 | 5 | 50.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.5508 | 96.6967 | 98.4202 | 87.9726 | 644 | 22 | 623 | 10 | 5 | 50.0000 | |
| eyeh-varpipe | SNP | ti | map_l125_m0_e0 | * | 99.0106 | 99.6082 | 98.4201 | 77.7397 | 12712 | 50 | 12521 | 201 | 11 | 5.4726 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.2132 | 98.0073 | 98.4200 | 74.3056 | 2410 | 49 | 2367 | 38 | 26 | 68.4211 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m1_e0 | homalt | 94.7873 | 91.4141 | 98.4190 | 82.4913 | 181 | 17 | 249 | 4 | 2 | 50.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 76.7173 | 62.8571 | 98.4190 | 46.7368 | 220 | 130 | 249 | 4 | 4 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.3876 | 92.5373 | 98.4190 | 58.7276 | 496 | 40 | 498 | 8 | 6 | 75.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.9438 | 95.5133 | 98.4177 | 45.4467 | 1256 | 59 | 1244 | 20 | 12 | 60.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m2_e1 | het | 98.2622 | 98.1073 | 98.4177 | 90.7331 | 311 | 6 | 311 | 5 | 1 | 20.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.1044 | 93.8977 | 98.4174 | 74.4802 | 1708 | 111 | 1679 | 27 | 14 | 51.8519 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.1044 | 93.8977 | 98.4174 | 74.4802 | 1708 | 111 | 1679 | 27 | 14 | 51.8519 | |