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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
82601-82650 / 86044 show all | |||||||||||||||
| ciseli-custom | SNP | * | map_l250_m2_e0 | * | 69.1818 | 64.6798 | 74.3575 | 92.1767 | 5100 | 2785 | 5092 | 1756 | 343 | 19.5330 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.3728 | 99.7562 | 97.0272 | 61.9399 | 11456 | 28 | 11456 | 351 | 343 | 97.7208 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 92.4707 | 95.9016 | 89.2767 | 52.5444 | 468 | 20 | 3555 | 427 | 343 | 80.3279 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 89.3383 | 88.9709 | 89.7087 | 51.9572 | 7470 | 926 | 12596 | 1445 | 343 | 23.7370 | |
| bgallagher-sentieon | INDEL | I1_5 | * | homalt | 99.6433 | 99.8593 | 99.4283 | 55.0054 | 60343 | 85 | 60348 | 347 | 343 | 98.8473 | |
| mlin-fermikit | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1160 | 97.8900 | 98.3429 | 64.4756 | 27094 | 584 | 27122 | 457 | 344 | 75.2735 | |
| ckim-gatk | INDEL | D6_15 | * | * | 98.2230 | 97.9802 | 98.4670 | 55.8597 | 25565 | 527 | 25564 | 398 | 344 | 86.4322 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 66.8212 | 95.0125 | 51.5313 | 71.7775 | 381 | 20 | 387 | 364 | 344 | 94.5055 | |
| gduggal-snapfb | SNP | ti | map_l100_m0_e0 | * | 96.4920 | 96.2060 | 96.7797 | 70.0719 | 20945 | 826 | 20947 | 697 | 344 | 49.3544 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 57.2983 | 42.6638 | 87.2144 | 64.2116 | 4728 | 6354 | 4543 | 666 | 344 | 51.6517 | |
| gduggal-snapplat | SNP | tv | map_l125_m1_e0 | het | 93.1767 | 92.9883 | 93.3657 | 84.9692 | 9416 | 710 | 9415 | 669 | 344 | 51.4200 | |
| gduggal-snapvard | INDEL | C1_5 | HG002complexvar | het | 76.5611 | 100.0000 | 62.0235 | 78.1252 | 7 | 0 | 2213 | 1355 | 344 | 25.3875 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.7765 | 99.6055 | 96.0134 | 48.3178 | 8333 | 33 | 8333 | 346 | 344 | 99.4220 | |
| jlack-gatk | INDEL | D6_15 | * | het | 96.7124 | 98.9476 | 94.5760 | 63.3561 | 11470 | 122 | 11421 | 655 | 345 | 52.6718 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.9278 | 99.0227 | 93.0204 | 76.6292 | 5370 | 53 | 5371 | 403 | 345 | 85.6079 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.9278 | 99.0227 | 93.0204 | 76.6292 | 5370 | 53 | 5371 | 403 | 345 | 85.6079 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 90.7748 | 94.4594 | 87.3670 | 66.7807 | 4569 | 268 | 5007 | 724 | 345 | 47.6519 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1903 | 92.5366 | 93.8532 | 64.0267 | 5629 | 454 | 5512 | 361 | 345 | 95.5679 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.5920 | 97.2554 | 97.9309 | 57.6692 | 17186 | 485 | 17181 | 363 | 345 | 95.0413 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.5920 | 97.2554 | 97.9309 | 57.6692 | 17186 | 485 | 17181 | 363 | 345 | 95.0413 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 89.9267 | 99.0645 | 82.3323 | 76.8153 | 2118 | 20 | 2111 | 453 | 345 | 76.1589 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1314 | 98.8438 | 97.4291 | 67.5197 | 14448 | 169 | 14060 | 371 | 345 | 92.9919 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 75.5526 | 81.0392 | 70.7618 | 54.7757 | 5599 | 1310 | 4245 | 1754 | 345 | 19.6693 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 68.1699 | 56.9831 | 84.8219 | 60.1659 | 2089 | 1577 | 3096 | 554 | 345 | 62.2744 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 63.8520 | 52.6367 | 81.1407 | 57.2311 | 2146 | 1931 | 3201 | 744 | 345 | 46.3710 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002compoundhet | * | 95.3045 | 93.6144 | 97.0566 | 64.5995 | 11567 | 789 | 11574 | 351 | 345 | 98.2906 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.3687 | 99.7649 | 97.0110 | 61.9339 | 11457 | 27 | 11457 | 353 | 345 | 97.7337 | |
| cchapple-custom | SNP | * | map_l125_m2_e0 | het | 96.1245 | 97.3395 | 94.9395 | 78.6207 | 28538 | 780 | 28573 | 1523 | 346 | 22.7183 | |
| cchapple-custom | SNP | * | map_l125_m2_e1 | het | 96.1447 | 97.3583 | 94.9610 | 78.6712 | 28857 | 783 | 28890 | 1533 | 346 | 22.5701 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 88.5500 | 89.5115 | 87.6089 | 73.2264 | 3243 | 380 | 3217 | 455 | 346 | 76.0440 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 63.3979 | 87.0324 | 49.8584 | 69.2241 | 349 | 52 | 352 | 354 | 346 | 97.7401 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0536 | 99.7374 | 96.4257 | 55.6216 | 9496 | 25 | 9496 | 352 | 346 | 98.2955 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1938 | 98.9533 | 97.4458 | 67.6938 | 14464 | 153 | 14078 | 369 | 346 | 93.7669 | |
| cchapple-custom | SNP | * | map_l125_m2_e0 | * | 96.9367 | 97.1235 | 96.7507 | 75.0489 | 45379 | 1344 | 45379 | 1524 | 347 | 22.7690 | |
| cchapple-custom | SNP | * | map_l125_m2_e1 | * | 96.9542 | 97.1463 | 96.7628 | 75.1056 | 45855 | 1347 | 45852 | 1534 | 347 | 22.6206 | |
| ciseli-custom | SNP | tv | map_l150_m2_e0 | homalt | 85.5692 | 82.9537 | 88.3551 | 74.3676 | 3387 | 696 | 3384 | 446 | 347 | 77.8027 | |
| astatham-gatk | INDEL | D6_15 | * | * | 98.2985 | 98.0875 | 98.5103 | 54.9898 | 25593 | 499 | 25592 | 387 | 347 | 89.6641 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 39.5158 | 40.0000 | 39.0432 | 37.8119 | 132 | 198 | 253 | 395 | 347 | 87.8481 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.6951 | 91.4187 | 91.9731 | 70.0049 | 5561 | 522 | 5603 | 489 | 348 | 71.1656 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 90.7742 | 93.8101 | 87.9287 | 67.8048 | 5850 | 386 | 6359 | 873 | 348 | 39.8625 | |
| ciseli-custom | SNP | tv | map_l100_m0_e0 | homalt | 86.8291 | 85.5694 | 88.1265 | 64.0732 | 3291 | 555 | 3288 | 443 | 348 | 78.5553 | |
| ciseli-custom | SNP | tv | map_l150_m2_e1 | homalt | 85.5896 | 82.9463 | 88.4069 | 74.3629 | 3429 | 705 | 3424 | 449 | 348 | 77.5056 | |
| cchapple-custom | INDEL | D6_15 | * | * | 97.8623 | 97.1869 | 98.5472 | 48.1960 | 25358 | 734 | 26658 | 393 | 348 | 88.5496 | |
| qzeng-custom | SNP | ti | map_l150_m1_e0 | het | 79.9066 | 68.7551 | 95.3758 | 89.6012 | 8505 | 3865 | 8477 | 411 | 348 | 84.6715 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1107 | 96.2703 | 97.9659 | 43.0945 | 17578 | 681 | 17579 | 365 | 348 | 95.3425 | |
| jmaeng-gatk | INDEL | I6_15 | HG002compoundhet | * | 93.8901 | 92.0123 | 95.8462 | 36.5464 | 8075 | 701 | 8076 | 350 | 348 | 99.4286 | |
| gduggal-snapfb | SNP | ti | map_l150_m1_e0 | * | 96.2042 | 95.8452 | 96.5660 | 76.1103 | 18893 | 819 | 18897 | 672 | 348 | 51.7857 | |
| gduggal-snapfb | SNP | ti | map_l150_m2_e0 | * | 96.3262 | 95.9877 | 96.6670 | 77.7511 | 19689 | 823 | 19693 | 679 | 349 | 51.3991 | |
| qzeng-custom | SNP | ti | map_l100_m0_e0 | het | 81.5587 | 70.9290 | 95.9360 | 86.8580 | 9918 | 4065 | 9891 | 419 | 349 | 83.2936 | |
| qzeng-custom | SNP | ti | map_l150_m2_e0 | het | 80.5235 | 69.5753 | 95.5605 | 89.8900 | 8962 | 3919 | 8933 | 415 | 349 | 84.0964 | |