PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
54401-54450 / 86044 show all | |||||||||||||||
| gduggal-snapplat | SNP | ti | * | het | 98.9857 | 98.8246 | 99.1474 | 28.1840 | 1266829 | 15068 | 1267456 | 10899 | 1576 | 14.4600 | |
| ckim-isaac | SNP | * | HG002complexvar | het | 96.2337 | 92.7890 | 99.9440 | 16.5252 | 431933 | 33567 | 432230 | 242 | 35 | 14.4628 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 17.3913 | 86.6667 | 0 | 0 | 16 | 76 | 11 | 14.4737 | |
| hfeng-pmm3 | SNP | ti | map_l125_m0_e0 | * | 99.3611 | 99.3183 | 99.4039 | 74.1190 | 12675 | 87 | 12673 | 76 | 11 | 14.4737 | |
| hfeng-pmm3 | SNP | * | map_l100_m0_e0 | * | 99.4850 | 99.4123 | 99.5578 | 68.0774 | 32648 | 193 | 32644 | 145 | 21 | 14.4828 | |
| qzeng-custom | INDEL | D6_15 | map_siren | * | 82.8301 | 89.5874 | 77.0206 | 83.5033 | 456 | 53 | 486 | 145 | 21 | 14.4828 | |
| gduggal-snapvard | SNP | * | * | het | 98.8907 | 98.9717 | 98.8098 | 27.4520 | 1854334 | 19266 | 1842523 | 22194 | 3216 | 14.4904 | |
| gduggal-snapvard | INDEL | C1_5 | HG002compoundhet | * | 0.0000 | 0.0000 | 30.1095 | 80.7008 | 0 | 1 | 330 | 766 | 111 | 14.4909 | |
| ltrigg-rtg2 | SNP | ti | map_siren | * | 99.4787 | 99.1669 | 99.7924 | 46.9044 | 99518 | 836 | 99513 | 207 | 30 | 14.4928 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.9150 | 98.5617 | 95.3224 | 87.1181 | 6784 | 99 | 6888 | 338 | 49 | 14.4970 | |
| gduggal-bwafb | SNP | tv | map_l100_m2_e1 | het | 98.4812 | 99.0651 | 97.9041 | 72.6029 | 15789 | 149 | 15789 | 338 | 49 | 14.4970 | |
| gduggal-bwafb | SNP | tv | map_l100_m1_e0 | het | 98.4524 | 99.0335 | 97.8781 | 70.7160 | 15268 | 149 | 15268 | 331 | 48 | 14.5015 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.0952 | 98.5606 | 95.6726 | 86.1499 | 4177 | 61 | 4267 | 193 | 28 | 14.5078 | |
| mlin-fermikit | SNP | tv | HG002complexvar | het | 98.0988 | 96.3081 | 99.9573 | 20.3091 | 145169 | 5565 | 145103 | 62 | 9 | 14.5161 | |
| hfeng-pmm3 | SNP | tv | map_l150_m1_e0 | * | 99.3718 | 99.3127 | 99.4310 | 74.1360 | 10837 | 75 | 10835 | 62 | 9 | 14.5161 | |
| qzeng-custom | INDEL | D6_15 | map_siren | het | 82.9558 | 91.7857 | 75.6757 | 84.8504 | 257 | 23 | 364 | 117 | 17 | 14.5299 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 20.4886 | 18.2277 | 23.3898 | 80.8737 | 397 | 1781 | 552 | 1808 | 263 | 14.5465 | |
| gduggal-bwavard | INDEL | * | map_l250_m2_e0 | * | 83.4899 | 93.9577 | 75.1208 | 96.3544 | 311 | 20 | 311 | 103 | 15 | 14.5631 | |
| gduggal-bwavard | INDEL | * | map_l250_m2_e1 | * | 83.5781 | 93.9940 | 75.2404 | 96.4341 | 313 | 20 | 313 | 103 | 15 | 14.5631 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e1 | het | 98.8048 | 99.2830 | 98.3312 | 79.8100 | 20217 | 146 | 20211 | 343 | 50 | 14.5773 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 70.8437 | 85.1449 | 60.6557 | 92.9804 | 235 | 41 | 222 | 144 | 21 | 14.5833 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m2_e1 | * | 92.6122 | 96.6292 | 88.9159 | 89.2090 | 1118 | 39 | 1099 | 137 | 20 | 14.5985 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 87.2890 | 97.6896 | 78.8899 | 75.7087 | 1649 | 39 | 1663 | 445 | 65 | 14.6067 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 40.2264 | 28.2838 | 69.6252 | 65.8356 | 1503 | 3811 | 1412 | 616 | 90 | 14.6104 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m2_e0 | * | 95.7666 | 96.8545 | 94.7028 | 87.9645 | 739 | 24 | 733 | 41 | 6 | 14.6341 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m2_e1 | * | 95.7815 | 96.7866 | 94.7970 | 87.9805 | 753 | 25 | 747 | 41 | 6 | 14.6341 | |
| bgallagher-sentieon | SNP | * | map_l150_m0_e0 | * | 98.7085 | 99.1107 | 98.3096 | 80.7877 | 11925 | 107 | 11922 | 205 | 30 | 14.6341 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 79.1231 | 74.0733 | 84.9119 | 84.9242 | 3597 | 1259 | 3613 | 642 | 94 | 14.6417 | |
| gduggal-snapplat | SNP | * | HG002complexvar | het | 97.4346 | 97.1046 | 97.7668 | 23.9217 | 452022 | 13478 | 453020 | 10348 | 1516 | 14.6502 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e0 | het | 98.7961 | 99.2748 | 98.3220 | 79.7541 | 19987 | 146 | 19981 | 341 | 50 | 14.6628 | |
| bgallagher-sentieon | SNP | ti | map_l125_m2_e1 | het | 99.0933 | 99.3608 | 98.8273 | 75.6520 | 18965 | 122 | 18961 | 225 | 33 | 14.6667 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 16.6667 | 86.1751 | 0 | 0 | 15 | 75 | 11 | 14.6667 | |
| qzeng-custom | INDEL | D16_PLUS | * | * | 79.4045 | 91.9517 | 69.8705 | 62.5471 | 6238 | 546 | 6528 | 2815 | 413 | 14.6714 | |
| gduggal-snapplat | INDEL | * | map_siren | homalt | 83.6919 | 74.7269 | 95.1011 | 85.8909 | 1984 | 671 | 2116 | 109 | 16 | 14.6789 | |
| gduggal-snapplat | INDEL | * | map_l250_m1_e0 | * | 76.0632 | 67.8689 | 86.5079 | 98.0285 | 207 | 98 | 218 | 34 | 5 | 14.7059 | |
| bgallagher-sentieon | SNP | * | map_l125_m0_e0 | het | 98.5131 | 99.1551 | 97.8793 | 78.7667 | 12557 | 107 | 12554 | 272 | 40 | 14.7059 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.5454 | 98.2333 | 98.8594 | 76.8466 | 2947 | 53 | 2947 | 34 | 5 | 14.7059 | |
| gduggal-bwavard | INDEL | * | map_l250_m1_e0 | * | 82.3699 | 93.4426 | 73.6434 | 96.1257 | 285 | 20 | 285 | 102 | 15 | 14.7059 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.0152 | 93.7848 | 98.3543 | 70.3629 | 2022 | 134 | 2032 | 34 | 5 | 14.7059 | |
| anovak-vg | INDEL | C1_5 | HG002complexvar | * | 63.2248 | 71.4286 | 56.7114 | 83.4812 | 5 | 2 | 169 | 129 | 19 | 14.7287 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 65.6349 | 65.9236 | 65.3487 | 72.3679 | 828 | 428 | 909 | 482 | 71 | 14.7303 | |
| bgallagher-sentieon | SNP | ti | map_l125_m2_e0 | het | 99.0858 | 99.3537 | 98.8194 | 75.6140 | 18754 | 122 | 18750 | 224 | 33 | 14.7321 | |
| gduggal-snapvard | SNP | tv | * | het | 98.6977 | 99.0250 | 98.3726 | 31.6253 | 585935 | 5769 | 583366 | 9651 | 1423 | 14.7446 | |
| gduggal-snapvard | SNP | ti | * | het | 98.9307 | 98.9471 | 98.9142 | 25.7701 | 1268399 | 13497 | 1263991 | 13875 | 2046 | 14.7459 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 90.8942 | 97.5031 | 85.1244 | 74.2945 | 9450 | 242 | 9545 | 1668 | 246 | 14.7482 | |
| gduggal-snapfb | SNP | ti | HG002complexvar | * | 99.2700 | 99.6259 | 98.9167 | 19.8956 | 506535 | 1902 | 507043 | 5553 | 819 | 14.7488 | |
| cchapple-custom | SNP | tv | segdup | * | 99.5434 | 99.8008 | 99.2874 | 93.0362 | 8515 | 17 | 8499 | 61 | 9 | 14.7541 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 75.9768 | 87.8450 | 66.9339 | 67.8314 | 1496 | 207 | 1670 | 825 | 122 | 14.7879 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 88.3710 | 98.3627 | 80.2220 | 89.1848 | 781 | 13 | 795 | 196 | 29 | 14.7959 | |
| bgallagher-sentieon | SNP | ti | map_siren | * | 99.6181 | 99.6801 | 99.5561 | 54.0168 | 100034 | 321 | 100019 | 446 | 66 | 14.7982 | |