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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
79901-79950 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5615 | 99.2123 | 99.9132 | 66.4238 | 11461 | 91 | 11511 | 10 | 8 | 80.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5615 | 99.2123 | 99.9132 | 66.4238 | 11461 | 91 | 11511 | 10 | 8 | 80.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.3815 | 99.4979 | 95.3533 | 74.7822 | 11494 | 58 | 11512 | 561 | 264 | 47.0588 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.3815 | 99.4979 | 95.3533 | 74.7822 | 11494 | 58 | 11512 | 561 | 264 | 47.0588 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8049 | 99.6537 | 99.9566 | 69.9831 | 11512 | 40 | 11514 | 5 | 2 | 40.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8049 | 99.6537 | 99.9566 | 69.9831 | 11512 | 40 | 11514 | 5 | 2 | 40.0000 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 87.4697 | 78.9719 | 98.0167 | 90.7130 | 11507 | 3064 | 11515 | 233 | 49 | 21.0300 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 87.4697 | 78.9719 | 98.0167 | 90.7130 | 11507 | 3064 | 11515 | 233 | 49 | 21.0300 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 92.9543 | 91.5421 | 94.4108 | 58.8410 | 5877 | 543 | 11520 | 682 | 569 | 83.4311 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 92.9543 | 91.5421 | 94.4108 | 58.8410 | 5877 | 543 | 11520 | 682 | 569 | 83.4311 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8483 | 99.7230 | 99.9740 | 62.7618 | 11520 | 32 | 11520 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8483 | 99.7230 | 99.9740 | 62.7618 | 11520 | 32 | 11520 | 3 | 3 | 100.0000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8440 | 99.7316 | 99.9566 | 64.4687 | 11521 | 31 | 11521 | 5 | 4 | 80.0000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8440 | 99.7316 | 99.9566 | 64.4687 | 11521 | 31 | 11521 | 5 | 4 | 80.0000 | |
| ltrigg-rtg2 | SNP | * | map_l150_m0_e0 | * | 97.7647 | 95.7862 | 99.8267 | 65.0696 | 11525 | 507 | 11521 | 20 | 4 | 20.0000 | |
| ciseli-custom | INDEL | I1_5 | HG002complexvar | homalt | 88.0614 | 87.4926 | 88.6376 | 45.0592 | 11766 | 1682 | 11522 | 1477 | 1282 | 86.7976 | |
| gduggal-snapplat | INDEL | * | HG002compoundhet | * | 42.2745 | 36.5854 | 50.0587 | 72.5688 | 10961 | 18999 | 11522 | 11495 | 5404 | 47.0117 | |
| anovak-vg | INDEL | D6_15 | * | het | 76.4820 | 81.7202 | 71.8750 | 45.3746 | 9473 | 2119 | 11523 | 4509 | 3518 | 78.0217 | |
| dgrover-gatk | SNP | * | map_l100_m0_e0 | homalt | 99.5293 | 99.1738 | 99.8873 | 60.6890 | 11524 | 96 | 11524 | 13 | 9 | 69.2308 | |
| jmaeng-gatk | INDEL | D1_5 | HG002compoundhet | * | 95.7461 | 94.1888 | 97.3557 | 66.4684 | 11524 | 711 | 11524 | 313 | 309 | 98.7220 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8700 | 99.7836 | 99.9566 | 69.9578 | 11527 | 25 | 11527 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8700 | 99.7836 | 99.9566 | 69.9578 | 11527 | 25 | 11527 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8787 | 99.7922 | 99.9653 | 69.1476 | 11528 | 24 | 11528 | 4 | 2 | 50.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8787 | 99.7922 | 99.9653 | 69.1476 | 11528 | 24 | 11528 | 4 | 2 | 50.0000 | |
| ckim-dragen | SNP | * | map_l100_m0_e0 | homalt | 99.4909 | 99.2169 | 99.7664 | 57.4442 | 11529 | 91 | 11532 | 27 | 24 | 88.8889 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.9134 | 99.8615 | 99.9653 | 69.5900 | 11536 | 16 | 11536 | 4 | 3 | 75.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.9134 | 99.8615 | 99.9653 | 69.5900 | 11536 | 16 | 11536 | 4 | 3 | 75.0000 | |
| ckim-dragen | INDEL | I1_5 | HG002compoundhet | * | 94.8982 | 93.4283 | 96.4151 | 65.5477 | 11544 | 812 | 11538 | 429 | 425 | 99.0676 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | * | 96.6675 | 94.0758 | 99.4060 | 64.7187 | 11624 | 732 | 11547 | 69 | 52 | 75.3623 | |
| jli-custom | SNP | * | map_l100_m0_e0 | homalt | 99.6679 | 99.4234 | 99.9135 | 58.5496 | 11553 | 67 | 11553 | 10 | 10 | 100.0000 | |
| bgallagher-sentieon | SNP | * | map_l100_m0_e0 | homalt | 99.6507 | 99.4320 | 99.8703 | 60.0283 | 11554 | 66 | 11554 | 15 | 11 | 73.3333 | |
| ndellapenna-hhga | SNP | * | map_l100_m0_e0 | homalt | 99.6765 | 99.4406 | 99.9135 | 60.1441 | 11555 | 65 | 11555 | 10 | 8 | 80.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 82.0910 | 79.0543 | 85.3704 | 89.9548 | 11519 | 3052 | 11560 | 1981 | 144 | 7.2691 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 82.0910 | 79.0543 | 85.3704 | 89.9548 | 11519 | 3052 | 11560 | 1981 | 144 | 7.2691 | |
| ckim-vqsr | INDEL | D1_5 | HG002compoundhet | * | 95.9661 | 94.4994 | 97.4791 | 66.2791 | 11562 | 673 | 11562 | 299 | 296 | 98.9967 | |
| astatham-gatk | SNP | * | map_l150_m2_e0 | homalt | 99.3470 | 98.8375 | 99.8618 | 70.8404 | 11563 | 136 | 11563 | 16 | 13 | 81.2500 | |
| asubramanian-gatk | INDEL | D1_5 | HG002compoundhet | * | 95.6905 | 94.4340 | 96.9809 | 66.6013 | 11554 | 681 | 11564 | 360 | 339 | 94.1667 | |
| raldana-dualsentieon | SNP | * | map_l100_m0_e0 | homalt | 99.7198 | 99.5353 | 99.9050 | 58.6521 | 11566 | 54 | 11566 | 11 | 8 | 72.7273 | |
| ckim-gatk | INDEL | D1_5 | HG002compoundhet | * | 95.9834 | 94.5321 | 97.4800 | 66.2715 | 11566 | 669 | 11566 | 299 | 296 | 98.9967 | |
| ltrigg-rtg2 | SNP | * | map_l100_m0_e0 | homalt | 99.7457 | 99.5611 | 99.9309 | 58.9350 | 11569 | 51 | 11567 | 8 | 6 | 75.0000 | |
| gduggal-bwavard | SNP | * | map_l150_m0_e0 | * | 92.1711 | 97.2989 | 87.5568 | 86.0626 | 11707 | 325 | 11568 | 1644 | 70 | 4.2579 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002compoundhet | * | 95.3045 | 93.6144 | 97.0566 | 64.5995 | 11567 | 789 | 11574 | 351 | 345 | 98.2906 | |
| ltrigg-rtg1 | SNP | * | map_l100_m0_e0 | homalt | 99.7372 | 99.6299 | 99.8447 | 62.2918 | 11577 | 43 | 11575 | 18 | 15 | 83.3333 | |
| egarrison-hhga | SNP | * | map_l100_m0_e0 | homalt | 99.7759 | 99.6299 | 99.9223 | 61.7548 | 11577 | 43 | 11577 | 9 | 8 | 88.8889 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | * | 95.2373 | 93.5902 | 96.9436 | 67.0365 | 11564 | 792 | 11577 | 365 | 350 | 95.8904 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e0 | homalt | 99.4033 | 98.9657 | 99.8448 | 74.8531 | 11578 | 121 | 11578 | 18 | 11 | 61.1111 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e0 | homalt | 99.3437 | 98.9743 | 99.7158 | 73.6127 | 11579 | 120 | 11579 | 33 | 32 | 96.9697 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | * | 95.0768 | 93.6792 | 96.5167 | 65.8897 | 11575 | 781 | 11582 | 418 | 416 | 99.5215 | |
| hfeng-pmm3 | SNP | * | map_l100_m0_e0 | homalt | 99.7288 | 99.6902 | 99.7675 | 63.7304 | 11584 | 36 | 11584 | 27 | 10 | 37.0370 | |
| hfeng-pmm1 | SNP | * | map_l100_m0_e0 | homalt | 99.7374 | 99.7074 | 99.7675 | 63.8562 | 11586 | 34 | 11586 | 27 | 10 | 37.0370 | |