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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
58651-58700 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | ti | map_l250_m0_e0 | homalt | 97.5439 | 95.6422 | 99.5227 | 91.4751 | 417 | 19 | 417 | 2 | 1 | 50.0000 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.7441 | 95.6423 | 99.9404 | 50.0892 | 1690 | 77 | 1677 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m1_e0 | het | 94.8621 | 95.6432 | 94.0937 | 93.3890 | 461 | 21 | 462 | 29 | 3 | 10.3448 | |
| qzeng-custom | INDEL | I6_15 | * | het | 91.4351 | 95.6444 | 87.5806 | 52.1449 | 9596 | 437 | 11812 | 1675 | 583 | 34.8060 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.1595 | 95.6456 | 98.7220 | 86.6553 | 637 | 29 | 618 | 8 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.1595 | 95.6456 | 98.7220 | 86.6553 | 637 | 29 | 618 | 8 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.5125 | 95.6457 | 99.4536 | 45.9819 | 13421 | 611 | 13651 | 75 | 74 | 98.6667 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.4377 | 95.6458 | 99.2980 | 71.4667 | 1296 | 59 | 1273 | 9 | 4 | 44.4444 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.9131 | 95.6458 | 96.1820 | 79.8889 | 1296 | 59 | 1184 | 47 | 40 | 85.1064 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e1 | het | 96.2442 | 95.6466 | 96.8494 | 90.9830 | 2241 | 102 | 2244 | 73 | 11 | 15.0685 | |
| hfeng-pmm1 | INDEL | * | HG002complexvar | hetalt | 97.6611 | 95.6475 | 99.7614 | 69.0744 | 3538 | 161 | 3763 | 9 | 8 | 88.8889 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.3413 | 95.6476 | 99.0960 | 66.2729 | 901 | 41 | 877 | 8 | 1 | 12.5000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.0630 | 95.6476 | 98.5210 | 73.1357 | 901 | 41 | 866 | 13 | 7 | 53.8462 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8837 | 95.6479 | 98.1519 | 65.9512 | 3890 | 177 | 3877 | 73 | 64 | 87.6712 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8111 | 95.6479 | 98.0030 | 65.9757 | 3890 | 177 | 3877 | 79 | 63 | 79.7468 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.3294 | 95.6482 | 97.0203 | 55.0608 | 16902 | 769 | 16899 | 519 | 497 | 95.7611 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.3294 | 95.6482 | 97.0203 | 55.0608 | 16902 | 769 | 16899 | 519 | 497 | 95.7611 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.9301 | 95.6489 | 98.2460 | 63.4208 | 13981 | 636 | 13611 | 243 | 222 | 91.3580 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.3271 | 95.6499 | 93.0405 | 79.9739 | 27463 | 1249 | 27553 | 2061 | 214 | 10.3833 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.3271 | 95.6499 | 93.0405 | 79.9739 | 27463 | 1249 | 27553 | 2061 | 214 | 10.3833 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.3848 | 95.6522 | 89.3333 | 91.3793 | 66 | 3 | 67 | 8 | 4 | 50.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 34.9475 | 95.6522 | 21.3793 | 16.5708 | 154 | 7 | 155 | 570 | 530 | 92.9825 | |
| gduggal-bwavard | INDEL | D1_5 | map_l250_m0_e0 | * | 73.9496 | 95.6522 | 60.2740 | 97.1350 | 44 | 2 | 44 | 29 | 2 | 6.8966 | |
| gduggal-bwavard | INDEL | D6_15 | segdup | het | 77.0066 | 95.6522 | 64.4444 | 95.1837 | 88 | 4 | 87 | 48 | 48 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 84.6154 | 95.6522 | 75.8621 | 82.5301 | 22 | 1 | 22 | 7 | 6 | 85.7143 | |
| qzeng-custom | INDEL | D6_15 | segdup | het | 90.2081 | 95.6522 | 85.3503 | 94.2743 | 88 | 4 | 134 | 23 | 6 | 26.0870 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 64.5786 | 95.6522 | 48.7437 | 63.6197 | 22 | 1 | 97 | 102 | 88 | 86.2745 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 68.4444 | 95.6522 | 53.2872 | 40.7787 | 154 | 7 | 154 | 135 | 135 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 97.7778 | 95.6522 | 100.0000 | 4.3478 | 22 | 1 | 22 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D6_15 | map_l150_m2_e0 | het | 97.7778 | 95.6522 | 100.0000 | 91.0751 | 44 | 2 | 44 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I1_5 | map_l150_m1_e0 | het | 96.1457 | 95.6522 | 96.6443 | 87.6707 | 286 | 13 | 288 | 10 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l250_m2_e1 | homalt | 96.7033 | 95.6522 | 97.7778 | 94.5718 | 44 | 2 | 44 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.7778 | 95.6522 | 100.0000 | 89.8305 | 66 | 3 | 66 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.7778 | 95.6522 | 100.0000 | 79.0476 | 22 | 1 | 22 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D1_5 | map_l250_m2_e0 | * | 96.7033 | 95.6522 | 97.7778 | 95.0685 | 176 | 8 | 176 | 4 | 2 | 50.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l150_m2_e0 | het | 95.9024 | 95.6522 | 96.1538 | 91.6800 | 44 | 2 | 50 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | map_l100_m1_e0 | het | 88.7014 | 95.6522 | 82.6923 | 96.3989 | 44 | 2 | 43 | 9 | 4 | 44.4444 | |
| eyeh-varpipe | INDEL | D1_5 | map_l250_m0_e0 | * | 95.1569 | 95.6522 | 94.6667 | 96.8867 | 44 | 2 | 71 | 4 | 1 | 25.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 97.7778 | 95.6522 | 100.0000 | 8.3333 | 22 | 1 | 22 | 0 | 0 | ||
| ckim-vqsr | INDEL | I1_5 | map_l150_m1_e0 | * | 96.6092 | 95.6522 | 97.5855 | 92.5754 | 484 | 22 | 485 | 12 | 2 | 16.6667 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.7778 | 95.6522 | 100.0000 | 90.4348 | 66 | 3 | 66 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | map_l250_m2_e0 | homalt | 96.4912 | 95.6522 | 97.3451 | 95.5424 | 110 | 5 | 110 | 3 | 2 | 66.6667 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.7778 | 95.6522 | 100.0000 | 90.3790 | 66 | 3 | 66 | 0 | 0 | ||
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 97.7778 | 95.6522 | 100.0000 | 12.0000 | 22 | 1 | 22 | 0 | 0 | ||
| egarrison-hhga | INDEL | D6_15 | segdup | het | 94.7244 | 95.6522 | 93.8144 | 94.1033 | 88 | 4 | 91 | 6 | 6 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l250_m0_e0 | * | 94.6237 | 95.6522 | 93.6170 | 97.1567 | 44 | 2 | 44 | 3 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | het | 87.7958 | 95.6522 | 81.1321 | 96.3322 | 44 | 2 | 43 | 10 | 4 | 40.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 97.7778 | 95.6522 | 100.0000 | 8.3333 | 22 | 1 | 22 | 0 | 0 | ||
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.7778 | 95.6522 | 100.0000 | 89.8462 | 66 | 3 | 66 | 0 | 0 | ||
| ckim-gatk | SNP | ti | HG002complexvar | hetalt | 97.5369 | 95.6522 | 99.4975 | 39.5137 | 198 | 9 | 198 | 1 | 1 | 100.0000 | |