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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80251-80300 / 86044 show all | |||||||||||||||
| eyeh-varpipe | SNP | * | * | homalt | 99.9696 | 99.9699 | 99.9693 | 17.3914 | 1179807 | 355 | 1154702 | 355 | 142 | 40.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | HG002compoundhet | * | 63.8133 | 53.4814 | 79.0931 | 40.7537 | 1252 | 1089 | 1343 | 355 | 284 | 80.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.3849 | 98.2708 | 96.5148 | 54.3311 | 10002 | 176 | 9831 | 355 | 280 | 78.8732 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7498 | 97.1281 | 98.3795 | 53.6051 | 21611 | 639 | 21612 | 356 | 342 | 96.0674 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.4920 | 97.0234 | 97.9652 | 58.1135 | 17145 | 526 | 17140 | 356 | 338 | 94.9438 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.4920 | 97.0234 | 97.9652 | 58.1135 | 17145 | 526 | 17140 | 356 | 338 | 94.9438 | |
| ckim-vqsr | SNP | * | map_l100_m2_e1 | het | 85.4225 | 75.1205 | 98.9994 | 84.8723 | 35230 | 11668 | 35222 | 356 | 13 | 3.6517 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6405 | 97.3120 | 97.9712 | 57.8582 | 17196 | 475 | 17191 | 356 | 338 | 94.9438 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6405 | 97.3120 | 97.9712 | 57.8582 | 17196 | 475 | 17191 | 356 | 338 | 94.9438 | |
| jpowers-varprowl | SNP | * | map_l250_m1_e0 | * | 94.8303 | 94.6137 | 95.0480 | 91.2876 | 6833 | 389 | 6833 | 356 | 90 | 25.2809 | |
| jpowers-varprowl | SNP | tv | map_l100_m0_e0 | * | 96.7509 | 96.7160 | 96.7858 | 76.5215 | 10720 | 364 | 10720 | 356 | 89 | 25.0000 | |
| jmaeng-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.0402 | 94.1203 | 95.9783 | 36.0728 | 8500 | 531 | 8496 | 356 | 353 | 99.1573 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.2347 | 98.2481 | 96.2420 | 74.4091 | 8973 | 160 | 9117 | 356 | 12 | 3.3708 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.2347 | 98.2481 | 96.2420 | 74.4091 | 8973 | 160 | 9117 | 356 | 12 | 3.3708 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 68.9830 | 54.5121 | 93.9135 | 78.7818 | 5491 | 4582 | 5493 | 356 | 149 | 41.8539 | |
| anovak-vg | SNP | ti | segdup | het | 97.2381 | 97.4480 | 97.0290 | 93.2429 | 11723 | 307 | 11659 | 357 | 90 | 25.2101 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e0 | * | 99.1151 | 99.3470 | 98.8842 | 77.1865 | 31644 | 208 | 31638 | 357 | 62 | 17.3669 | |
| ckim-dragen | INDEL | * | HG002complexvar | * | 99.3944 | 99.2565 | 99.5327 | 58.0987 | 76366 | 572 | 76037 | 357 | 301 | 84.3137 | |
| gduggal-snapplat | INDEL | D6_15 | HG002compoundhet | het | 18.8426 | 19.6262 | 18.1193 | 66.4873 | 168 | 688 | 79 | 357 | 161 | 45.0980 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.0896 | 75.1071 | 81.3187 | 71.3321 | 1578 | 523 | 1554 | 357 | 352 | 98.5994 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.2676 | 97.9992 | 98.5375 | 41.6126 | 24049 | 491 | 24053 | 357 | 339 | 94.9580 | |
| qzeng-custom | INDEL | I16_PLUS | * | homalt | 86.1427 | 93.0814 | 80.1667 | 65.0757 | 1453 | 108 | 1443 | 357 | 186 | 52.1008 | |
| qzeng-custom | SNP | * | segdup | het | 98.3153 | 98.7007 | 97.9329 | 93.6755 | 17092 | 225 | 16961 | 358 | 11 | 3.0726 | |
| qzeng-custom | SNP | tv | HG002complexvar | het | 99.0228 | 98.2997 | 99.7567 | 23.1864 | 148171 | 2563 | 146790 | 358 | 101 | 28.2123 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7091 | 96.6601 | 98.7812 | 70.7632 | 29462 | 1018 | 29015 | 358 | 247 | 68.9944 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7091 | 96.6601 | 98.7812 | 70.7632 | 29462 | 1018 | 29015 | 358 | 247 | 68.9944 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 14.5882 | 86.1111 | 7.9692 | 66.8654 | 31 | 5 | 31 | 358 | 1 | 0.2793 | |
| bgallagher-sentieon | SNP | * | map_l100_m0_e0 | * | 99.1340 | 99.3545 | 98.9146 | 69.7273 | 32629 | 212 | 32625 | 358 | 60 | 16.7598 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5802 | 99.1091 | 98.0569 | 48.2748 | 18021 | 162 | 18066 | 358 | 80 | 22.3464 | |
| ckim-dragen | SNP | tv | map_l125_m2_e0 | het | 97.7368 | 98.8508 | 96.6476 | 79.0398 | 10322 | 120 | 10321 | 358 | 26 | 7.2626 | |
| ckim-gatk | SNP | tv | map_l125_m2_e1 | het | 87.8849 | 81.0480 | 95.9816 | 88.0637 | 8553 | 2000 | 8551 | 358 | 15 | 4.1899 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 57.4755 | 62.1622 | 53.4460 | 78.1472 | 414 | 252 | 411 | 358 | 355 | 99.1620 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 57.4755 | 62.1622 | 53.4460 | 78.1472 | 414 | 252 | 411 | 358 | 355 | 99.1620 | |
| eyeh-varpipe | SNP | tv | map_l150_m0_e0 | * | 95.6512 | 99.5927 | 92.0098 | 83.3079 | 4157 | 17 | 4134 | 359 | 8 | 2.2284 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.1505 | 98.5769 | 91.9543 | 85.8273 | 4087 | 59 | 4103 | 359 | 47 | 13.0919 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 58.5125 | 78.4461 | 46.6568 | 31.7444 | 313 | 86 | 314 | 359 | 357 | 99.4429 | |
| gduggal-snapfb | SNP | * | map_l250_m1_e0 | het | 94.0213 | 95.4154 | 92.6675 | 86.7306 | 4537 | 218 | 4537 | 359 | 166 | 46.2396 | |
| gduggal-snapfb | INDEL | D6_15 | HG002complexvar | * | 75.6069 | 64.9189 | 90.5077 | 47.3259 | 3442 | 1860 | 3423 | 359 | 338 | 94.1504 | |
| gduggal-snapvard | INDEL | * | map_l125_m0_e0 | het | 81.4896 | 95.5707 | 71.0250 | 91.1456 | 561 | 26 | 880 | 359 | 93 | 25.9053 | |
| ckim-vqsr | SNP | * | map_l100_m2_e0 | * | 77.0107 | 62.9198 | 99.2344 | 83.7056 | 46538 | 27426 | 46530 | 359 | 16 | 4.4568 | |
| dgrover-gatk | INDEL | I6_15 | * | * | 97.9082 | 97.2888 | 98.5355 | 53.2809 | 24150 | 673 | 24155 | 359 | 329 | 91.6435 | |
| bgallagher-sentieon | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4306 | 99.8701 | 98.9950 | 61.8984 | 35373 | 46 | 35362 | 359 | 20 | 5.5710 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e1 | * | 99.1218 | 99.3542 | 98.8904 | 77.2353 | 32002 | 208 | 31996 | 359 | 62 | 17.2702 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2748 | 99.1091 | 99.4411 | 74.0482 | 63857 | 574 | 63870 | 359 | 327 | 91.0864 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2830 | 96.3585 | 98.2253 | 48.3467 | 19846 | 750 | 19870 | 359 | 319 | 88.8579 | |
| anovak-vg | INDEL | * | map_l125_m1_e0 | het | 70.6166 | 68.5393 | 72.8236 | 88.9382 | 915 | 420 | 962 | 359 | 95 | 26.4624 | |
| hfeng-pmm1 | INDEL | I1_5 | * | * | 99.5147 | 99.2699 | 99.7606 | 57.3300 | 149564 | 1100 | 149609 | 359 | 252 | 70.1950 | |
| dgrover-gatk | SNP | * | map_l100_m2_e0 | * | 99.4963 | 99.4795 | 99.5130 | 68.3628 | 73579 | 385 | 73568 | 360 | 79 | 21.9444 | |
| ckim-vqsr | SNP | * | map_l100_m2_e1 | * | 77.1389 | 63.0879 | 99.2421 | 83.6761 | 47150 | 27587 | 47142 | 360 | 16 | 4.4444 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 43.8042 | 29.8151 | 82.5243 | 69.3041 | 1709 | 4023 | 1700 | 360 | 316 | 87.7778 | |