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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51701-51750 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | I16_PLUS | HG002compoundhet | * | 94.1794 | 92.1139 | 96.3397 | 52.0365 | 1974 | 169 | 1974 | 75 | 75 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | HG002complexvar | hetalt | 93.7593 | 91.3129 | 96.3403 | 47.3985 | 925 | 88 | 974 | 37 | 37 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 93.7593 | 91.3129 | 96.3403 | 47.3985 | 925 | 88 | 974 | 37 | 37 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.9533 | 99.6209 | 96.3407 | 45.9172 | 3153 | 12 | 3133 | 119 | 118 | 99.1597 | |
| ckim-isaac | INDEL | * | map_l100_m2_e1 | hetalt | 74.9736 | 61.3636 | 96.3415 | 86.1252 | 81 | 51 | 79 | 3 | 3 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 95.8242 | 95.3125 | 96.3415 | 60.8992 | 549 | 27 | 553 | 21 | 19 | 90.4762 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.7807 | 89.4737 | 96.3415 | 89.6985 | 85 | 10 | 79 | 3 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 96.4583 | 96.5753 | 96.3415 | 31.6667 | 564 | 20 | 79 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | map_l150_m2_e0 | * | 95.1063 | 93.9024 | 96.3415 | 90.6712 | 77 | 5 | 79 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.0414 | 91.8486 | 96.3415 | 81.8634 | 631 | 56 | 632 | 24 | 14 | 58.3333 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.5799 | 90.9722 | 96.3415 | 79.3277 | 262 | 26 | 237 | 9 | 5 | 55.5556 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0712 | 99.8632 | 96.3424 | 50.4716 | 5110 | 7 | 5110 | 194 | 193 | 99.4845 | |
| ckim-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 94.2299 | 92.2072 | 96.3432 | 52.0122 | 1976 | 167 | 1976 | 75 | 75 | 100.0000 | |
| mlin-fermikit | INDEL | * | HG002complexvar | * | 95.4305 | 94.5346 | 96.3436 | 54.3245 | 72733 | 4205 | 72356 | 2746 | 2618 | 95.3387 | |
| ghariani-varprowl | INDEL | D1_5 | HG002complexvar | homalt | 95.9196 | 95.4992 | 96.3438 | 51.1776 | 10121 | 477 | 10066 | 382 | 245 | 64.1361 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.4664 | 90.7546 | 96.3452 | 62.2067 | 2189 | 223 | 2188 | 83 | 56 | 67.4699 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | het | 97.0125 | 97.6891 | 96.3452 | 79.1579 | 3086 | 73 | 2847 | 108 | 74 | 68.5185 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m0_e0 | * | 94.2615 | 92.2652 | 96.3462 | 85.0575 | 501 | 42 | 501 | 19 | 12 | 63.1579 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.7961 | 99.2900 | 96.3466 | 63.0116 | 1818 | 13 | 1846 | 70 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | map_l250_m0_e0 | het | 96.5998 | 96.8531 | 96.3478 | 94.1784 | 554 | 18 | 554 | 21 | 2 | 9.5238 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.3889 | 94.4487 | 96.3481 | 51.8879 | 1242 | 73 | 1240 | 47 | 41 | 87.2340 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 42.9905 | 27.6680 | 96.3481 | 42.7526 | 490 | 1281 | 1583 | 60 | 60 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | map_l150_m2_e0 | * | 93.8735 | 91.5222 | 96.3489 | 90.4328 | 475 | 44 | 475 | 18 | 11 | 61.1111 | |
| ckim-dragen | INDEL | D6_15 | map_l100_m2_e1 | het | 97.0588 | 97.7778 | 96.3504 | 90.9631 | 132 | 3 | 132 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m2_e1 | * | 96.1749 | 96.0000 | 96.3504 | 87.4023 | 264 | 11 | 264 | 10 | 2 | 20.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | map_l100_m2_e1 | het | 97.0588 | 97.7778 | 96.3504 | 88.9159 | 132 | 3 | 132 | 5 | 1 | 20.0000 | |
| jli-custom | INDEL | D16_PLUS | map_siren | * | 94.6492 | 93.0070 | 96.3504 | 92.5503 | 133 | 10 | 132 | 5 | 0 | 0.0000 | |
| jli-custom | INDEL | D6_15 | map_l100_m2_e1 | het | 96.6925 | 97.0370 | 96.3504 | 87.3733 | 131 | 4 | 132 | 5 | 1 | 20.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m1_e0 | het | 97.3465 | 98.3626 | 96.3512 | 90.4715 | 841 | 14 | 845 | 32 | 3 | 9.3750 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.8939 | 99.4854 | 96.3524 | 57.0732 | 14694 | 76 | 15268 | 578 | 432 | 74.7405 | |
| gduggal-bwafb | INDEL | D1_5 | map_l150_m2_e0 | het | 97.0048 | 97.6654 | 96.3532 | 88.1294 | 502 | 12 | 502 | 19 | 1 | 5.2632 | |
| jmaeng-gatk | SNP | tv | map_l100_m1_e0 | het | 91.2990 | 86.7484 | 96.3534 | 83.6231 | 13374 | 2043 | 13370 | 506 | 14 | 2.7668 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.2638 | 96.1738 | 96.3539 | 73.1963 | 1483 | 59 | 1797 | 68 | 52 | 76.4706 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9648 | 89.8058 | 96.3542 | 88.3918 | 185 | 21 | 185 | 7 | 3 | 42.8571 | |
| qzeng-custom | INDEL | I1_5 | map_siren | * | 88.5587 | 81.9301 | 96.3544 | 82.1964 | 2462 | 543 | 2643 | 100 | 24 | 24.0000 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.1588 | 93.9924 | 96.3545 | 65.5291 | 10858 | 694 | 10969 | 415 | 307 | 73.9759 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.1588 | 93.9924 | 96.3545 | 65.5291 | 10858 | 694 | 10969 | 415 | 307 | 73.9759 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.7299 | 97.1074 | 96.3554 | 83.0174 | 940 | 28 | 846 | 32 | 22 | 68.7500 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 89.9396 | 84.3248 | 96.3555 | 40.6305 | 5826 | 1083 | 5843 | 221 | 166 | 75.1131 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.1844 | 90.2139 | 96.3573 | 74.4602 | 9744 | 1057 | 9893 | 374 | 179 | 47.8610 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e1 | het | 91.5298 | 87.1628 | 96.3575 | 84.5264 | 13892 | 2046 | 13888 | 525 | 14 | 2.6667 | |
| mlin-fermikit | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.9682 | 99.6336 | 96.3576 | 67.1524 | 10060 | 37 | 10079 | 381 | 340 | 89.2388 | |
| ckim-dragen | SNP | * | map_l150_m2_e0 | het | 97.5195 | 98.7086 | 96.3588 | 81.7586 | 19873 | 260 | 19874 | 751 | 69 | 9.1878 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0566 | 99.8141 | 96.3599 | 59.7337 | 3759 | 7 | 3759 | 142 | 138 | 97.1831 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.0566 | 99.8141 | 96.3599 | 59.7337 | 3759 | 7 | 3759 | 142 | 138 | 97.1831 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 93.2394 | 90.3138 | 96.3610 | 69.7623 | 662 | 71 | 662 | 25 | 18 | 72.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002complexvar | hetalt | 94.0808 | 91.9052 | 96.3618 | 47.7926 | 931 | 82 | 980 | 37 | 37 | 100.0000 | |
| jpowers-varprowl | SNP | ti | segdup | het | 97.6001 | 98.8695 | 96.3629 | 92.1336 | 11894 | 136 | 11896 | 449 | 2 | 0.4454 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 0.0000 | 0.0000 | 96.3636 | 96.2737 | 0 | 0 | 53 | 2 | 1 | 50.0000 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 0.0000 | 0.0000 | 96.3636 | 96.2737 | 0 | 0 | 53 | 2 | 1 | 50.0000 | |