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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2001-2050 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D1_5 | HG002complexvar | * | 99.6498 | 99.5323 | 99.7675 | 58.6672 | 32562 | 153 | 32617 | 76 | 66 | 86.8421 | |
| bgallagher-sentieon | INDEL | D1_5 | HG002complexvar | * | 99.6177 | 99.4956 | 99.7400 | 58.4446 | 32550 | 165 | 32605 | 85 | 76 | 89.4118 | |
| raldana-dualsentieon | SNP | * | map_l100_m0_e0 | * | 99.0621 | 99.0682 | 99.0561 | 67.1734 | 32535 | 306 | 32531 | 310 | 12 | 3.8710 | |
| ckim-dragen | INDEL | D1_5 | HG002complexvar | * | 99.5269 | 99.3917 | 99.6625 | 58.3864 | 32516 | 199 | 32478 | 110 | 86 | 78.1818 | |
| astatham-gatk | INDEL | D1_5 | HG002complexvar | * | 99.5714 | 99.3825 | 99.7611 | 58.5986 | 32513 | 202 | 32567 | 78 | 66 | 84.6154 | |
| ckim-dragen | SNP | * | map_l100_m0_e0 | * | 98.2840 | 98.9495 | 97.6275 | 70.9502 | 32496 | 345 | 32508 | 790 | 91 | 11.5190 | |
| ckim-gatk | INDEL | D1_5 | HG002complexvar | * | 99.5163 | 99.3153 | 99.7181 | 58.5688 | 32491 | 224 | 32545 | 92 | 72 | 78.2609 | |
| jlack-gatk | INDEL | D1_5 | HG002complexvar | * | 99.4067 | 99.2878 | 99.5259 | 58.0276 | 32482 | 233 | 32539 | 155 | 92 | 59.3548 | |
| egarrison-hhga | SNP | * | map_l100_m0_e0 | * | 99.3454 | 98.8977 | 99.7972 | 67.0353 | 32479 | 362 | 32480 | 66 | 33 | 50.0000 | |
| rpoplin-dv42 | SNP | * | map_l100_m0_e0 | * | 99.0394 | 98.8947 | 99.1845 | 66.6640 | 32478 | 363 | 32474 | 267 | 146 | 54.6816 | |
| jli-custom | INDEL | D1_5 | HG002complexvar | * | 99.5191 | 99.2725 | 99.7668 | 57.5505 | 32477 | 238 | 32518 | 76 | 59 | 77.6316 | |
| asubramanian-gatk | SNP | * | map_l100_m2_e0 | * | 60.9821 | 43.8984 | 99.8339 | 85.3165 | 32469 | 41495 | 32463 | 54 | 14 | 25.9259 | |
| jli-custom | SNP | * | map_l100_m0_e0 | * | 99.1662 | 98.8612 | 99.4730 | 63.5990 | 32467 | 374 | 32467 | 172 | 59 | 34.3023 | |
| jmaeng-gatk | INDEL | D1_5 | HG002complexvar | * | 99.4486 | 99.1930 | 99.7055 | 58.6476 | 32451 | 264 | 32505 | 96 | 76 | 79.1667 | |
| ckim-vqsr | INDEL | D1_5 | HG002complexvar | * | 99.4499 | 99.1625 | 99.7391 | 58.6120 | 32441 | 274 | 32494 | 85 | 69 | 81.1765 | |
| rpoplin-dv42 | INDEL | D1_5 | HG002complexvar | * | 99.3660 | 99.1319 | 99.6013 | 57.4494 | 32431 | 284 | 32474 | 130 | 115 | 88.4615 | |
| gduggal-bwafb | SNP | * | map_l100_m0_e0 | * | 98.7063 | 98.7333 | 98.6792 | 70.9309 | 32425 | 416 | 32426 | 434 | 107 | 24.6544 | |
| jlack-gatk | SNP | * | map_l100_m0_e0 | * | 95.5864 | 98.6663 | 92.6930 | 78.0628 | 32403 | 438 | 32399 | 2554 | 207 | 8.1049 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002complexvar | * | 99.1938 | 98.8812 | 99.5083 | 54.2253 | 32349 | 366 | 32179 | 159 | 100 | 62.8931 | |
| ghariani-varprowl | SNP | * | map_l100_m0_e0 | * | 97.6658 | 98.4806 | 96.8644 | 74.2691 | 32342 | 499 | 32344 | 1047 | 227 | 21.6810 | |
| cchapple-custom | INDEL | D1_5 | HG002complexvar | * | 99.2131 | 98.7865 | 99.6433 | 53.2355 | 32318 | 397 | 31288 | 112 | 96 | 85.7143 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3040 | 97.2229 | 99.4094 | 71.0102 | 32313 | 923 | 38374 | 228 | 113 | 49.5614 | |
| ndellapenna-hhga | SNP | * | map_l100_m0_e0 | * | 99.0308 | 98.3192 | 99.7529 | 65.5554 | 32289 | 552 | 32290 | 80 | 41 | 51.2500 | |
| asubramanian-gatk | INDEL | D1_5 | HG002complexvar | * | 99.2090 | 98.6948 | 99.7287 | 58.8075 | 32288 | 427 | 32347 | 88 | 75 | 85.2273 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | * | 99.1020 | 98.6275 | 99.5810 | 54.4390 | 32266 | 449 | 32088 | 135 | 85 | 62.9630 | |
| jmaeng-gatk | SNP | ti | map_siren | homalt | 91.9235 | 85.0855 | 99.9566 | 52.7056 | 32261 | 5655 | 32255 | 14 | 14 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.1071 | 97.0183 | 99.2207 | 69.5547 | 32245 | 991 | 32847 | 258 | 171 | 66.2791 | |
| hfeng-pmm3 | INDEL | D1_5 | HG002complexvar | * | 99.2121 | 98.5267 | 99.9072 | 56.6840 | 32233 | 482 | 32285 | 30 | 19 | 63.3333 | |
| ckim-vqsr | SNP | tv | map_siren | * | 82.2625 | 70.1676 | 99.3954 | 75.7194 | 32228 | 13702 | 32221 | 196 | 7 | 3.5714 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 89.0060 | 88.0657 | 89.9667 | 48.3054 | 32225 | 4367 | 32137 | 3584 | 3498 | 97.6004 | |
| raldana-dualsentieon | INDEL | D1_5 | HG002complexvar | * | 99.1616 | 98.5022 | 99.8299 | 57.5831 | 32225 | 490 | 32276 | 55 | 41 | 74.5455 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002complexvar | * | 99.1842 | 98.4778 | 99.9009 | 57.1533 | 32217 | 498 | 32268 | 32 | 21 | 65.6250 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002complexvar | * | 99.1888 | 98.4747 | 99.9133 | 56.8376 | 32216 | 499 | 32267 | 28 | 18 | 64.2857 | |
| ckim-gatk | SNP | ti | map_siren | homalt | 91.8305 | 84.9219 | 99.9627 | 53.3585 | 32199 | 5717 | 32193 | 12 | 11 | 91.6667 | |
| ltrigg-rtg1 | SNP | * | map_l100_m0_e0 | * | 98.8943 | 98.0421 | 99.7614 | 58.2016 | 32198 | 643 | 32201 | 77 | 23 | 29.8701 | |
| ckim-isaac | SNP | * | map_l100_m2_e0 | het | 81.8136 | 69.3420 | 99.7551 | 67.9608 | 32174 | 14225 | 32181 | 79 | 12 | 15.1899 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.8145 | 96.7836 | 96.8455 | 61.4159 | 32167 | 1069 | 31775 | 1035 | 815 | 78.7440 | |
| gduggal-bwafb | INDEL | I1_5 | HG002complexvar | * | 97.5502 | 96.2593 | 98.8762 | 54.2720 | 32115 | 1248 | 32201 | 366 | 326 | 89.0710 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e1 | * | 98.5942 | 99.6616 | 97.5494 | 78.9029 | 32101 | 109 | 31168 | 783 | 30 | 3.8314 | |
| qzeng-custom | INDEL | D1_5 | HG002complexvar | * | 98.5796 | 98.0926 | 99.0713 | 54.7462 | 32091 | 624 | 32325 | 303 | 168 | 55.4455 | |
| ltrigg-rtg2 | SNP | * | map_l100_m0_e0 | * | 98.7191 | 97.6280 | 99.8350 | 53.7664 | 32062 | 779 | 32065 | 53 | 9 | 16.9811 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.7763 | 96.4226 | 95.1386 | 69.4450 | 32047 | 1189 | 32017 | 1636 | 1576 | 96.3325 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.2099 | 96.3623 | 73.2167 | 70.3492 | 32026 | 1209 | 47861 | 17508 | 14830 | 84.7041 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e1 | * | 99.4641 | 99.4070 | 99.5212 | 75.5898 | 32019 | 191 | 32013 | 154 | 23 | 14.9351 | |
| hfeng-pmm2 | SNP | * | map_l150_m2_e1 | * | 99.2528 | 99.3946 | 99.1113 | 77.7651 | 32015 | 195 | 32009 | 287 | 34 | 11.8467 | |
| gduggal-bwavard | SNP | * | map_l100_m0_e0 | * | 94.9074 | 97.4514 | 92.4929 | 77.7735 | 32004 | 837 | 31615 | 2566 | 141 | 5.4949 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e1 | * | 99.1218 | 99.3542 | 98.8904 | 77.2353 | 32002 | 208 | 31996 | 359 | 62 | 17.2702 | |
| ckim-isaac | SNP | ti | map_l100_m1_e0 | * | 80.0185 | 66.7647 | 99.8378 | 62.0110 | 32001 | 15930 | 32005 | 52 | 10 | 19.2308 | |
| ckim-isaac | SNP | tv | map_siren | * | 81.9877 | 69.5646 | 99.8126 | 55.0084 | 31951 | 13979 | 31956 | 60 | 25 | 41.6667 | |
| dgrover-gatk | SNP | * | map_l150_m2_e1 | * | 99.1741 | 99.1773 | 99.1710 | 78.4616 | 31945 | 265 | 31939 | 267 | 60 | 22.4719 | |