PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
48201-48250 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | * | map_l250_m0_e0 | * | 80.6630 | 93.5897 | 70.8738 | 98.9454 | 73 | 5 | 73 | 30 | 3 | 10.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e0 | het | 76.5318 | 83.2061 | 70.8487 | 83.4554 | 109 | 22 | 192 | 79 | 55 | 69.6203 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 70.8333 | 94.2446 | 0 | 0 | 34 | 14 | 5 | 35.7143 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 55.5669 | 45.7143 | 70.8333 | 96.2848 | 16 | 19 | 17 | 7 | 2 | 28.5714 | |
| gduggal-snapplat | INDEL | D6_15 | map_l125_m2_e0 | het | 47.0393 | 35.2113 | 70.8333 | 94.8052 | 25 | 46 | 17 | 7 | 1 | 14.2857 | |
| gduggal-snapplat | INDEL | D6_15 | map_l125_m2_e1 | het | 47.0393 | 35.2113 | 70.8333 | 94.8608 | 25 | 46 | 17 | 7 | 1 | 14.2857 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m1_e0 | homalt | 64.7619 | 59.6491 | 70.8333 | 88.7324 | 34 | 23 | 34 | 14 | 14 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 77.0538 | 84.4720 | 70.8333 | 31.6726 | 136 | 25 | 136 | 56 | 35 | 62.5000 | |
| anovak-vg | INDEL | * | map_l150_m0_e0 | het | 69.8552 | 68.9150 | 70.8215 | 94.2917 | 235 | 106 | 250 | 103 | 35 | 33.9806 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 42.9780 | 30.8511 | 70.8134 | 48.1390 | 145 | 325 | 592 | 244 | 168 | 68.8525 | |
| eyeh-varpipe | INDEL | D6_15 | map_siren | homalt | 78.3526 | 87.6923 | 70.8108 | 81.7374 | 114 | 16 | 131 | 54 | 40 | 74.0741 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m1_e0 | * | 77.6887 | 86.0465 | 70.8108 | 85.0746 | 222 | 36 | 262 | 108 | 10 | 9.2593 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 70.1872 | 69.5761 | 70.8092 | 55.2972 | 279 | 122 | 245 | 101 | 98 | 97.0297 | |
| ndellapenna-hhga | INDEL | D1_5 | HG002compoundhet | * | 69.2944 | 67.8709 | 70.7788 | 60.8775 | 8304 | 3931 | 8388 | 3463 | 3380 | 97.6032 | |
| anovak-vg | SNP | tv | map_l100_m2_e1 | het | 80.1681 | 92.4332 | 70.7766 | 74.1911 | 14732 | 1206 | 14718 | 6077 | 1278 | 21.0301 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 59.4331 | 51.2295 | 70.7650 | 59.7360 | 250 | 238 | 259 | 107 | 80 | 74.7664 | |
| 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 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 79.3723 | 90.3851 | 70.7516 | 51.9765 | 3497 | 372 | 3464 | 1432 | 1427 | 99.6508 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 82.1732 | 97.9957 | 70.7498 | 40.7293 | 7236 | 148 | 7624 | 3152 | 3088 | 97.9695 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 80.9329 | 94.5455 | 70.7469 | 64.8688 | 312 | 18 | 341 | 141 | 126 | 89.3617 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 46.0578 | 34.1432 | 70.7450 | 74.8821 | 1321 | 2548 | 1168 | 483 | 147 | 30.4348 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 50.7904 | 39.6185 | 70.7374 | 39.8375 | 540 | 823 | 5132 | 2123 | 1902 | 89.5902 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 68.5075 | 66.4183 | 70.7325 | 47.6018 | 13192 | 6670 | 15431 | 6385 | 4862 | 76.1472 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e1 | * | 77.5442 | 85.8182 | 70.7254 | 85.8712 | 236 | 39 | 273 | 113 | 12 | 10.6195 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 79.2669 | 90.1745 | 70.7134 | 62.8847 | 1964 | 214 | 2260 | 936 | 894 | 95.5128 | |
| anovak-vg | INDEL | * | map_l150_m1_e0 | * | 72.5622 | 74.5142 | 70.7099 | 89.9578 | 997 | 341 | 1026 | 425 | 224 | 52.7059 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e1 | het | 75.7065 | 81.4815 | 70.6960 | 83.7015 | 110 | 25 | 193 | 80 | 56 | 70.0000 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 81.1779 | 95.3254 | 70.6870 | 69.0825 | 4629 | 227 | 4671 | 1937 | 164 | 8.4667 | |
| gduggal-bwavard | SNP | * | map_l250_m0_e0 | het | 81.4711 | 96.1487 | 70.6811 | 95.2079 | 1448 | 58 | 1432 | 594 | 10 | 1.6835 | |
| anovak-vg | SNP | tv | map_l250_m0_e0 | * | 73.9996 | 77.6471 | 70.6794 | 95.9856 | 594 | 171 | 593 | 246 | 53 | 21.5447 | |
| anovak-vg | SNP | tv | map_l100_m2_e0 | het | 80.0810 | 92.3877 | 70.6676 | 74.1753 | 14576 | 1201 | 14566 | 6046 | 1273 | 21.0552 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 74.5876 | 79.0062 | 70.6370 | 92.2018 | 5438 | 1445 | 5456 | 2268 | 88 | 3.8801 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.0000 | 70.6250 | 95.1427 | 0 | 0 | 113 | 47 | 42 | 89.3617 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.0000 | 70.6250 | 95.1427 | 0 | 0 | 113 | 47 | 42 | 89.3617 | |
| jpowers-varprowl | INDEL | D6_15 | map_l100_m1_e0 | * | 66.4730 | 62.7907 | 70.6140 | 85.6874 | 162 | 96 | 161 | 67 | 64 | 95.5224 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 79.4418 | 90.8058 | 70.6058 | 71.2226 | 879 | 89 | 944 | 393 | 338 | 86.0051 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 68.7702 | 67.0305 | 70.6027 | 63.8943 | 3808 | 1873 | 5471 | 2278 | 1700 | 74.6269 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 71.6357 | 72.7045 | 70.5979 | 41.7864 | 7530 | 2827 | 9069 | 3777 | 3029 | 80.1959 | |
| anovak-vg | INDEL | I6_15 | map_l100_m0_e0 | homalt | 72.7273 | 75.0000 | 70.5882 | 81.1111 | 9 | 3 | 12 | 5 | 5 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l150_m2_e0 | het | 72.7273 | 75.0000 | 70.5882 | 91.4573 | 12 | 4 | 12 | 5 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l150_m2_e1 | het | 72.7273 | 75.0000 | 70.5882 | 91.7476 | 12 | 4 | 12 | 5 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 70.5882 | 91.2371 | 0 | 0 | 12 | 5 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 60.0000 | 52.1739 | 70.5882 | 90.1163 | 12 | 11 | 12 | 5 | 4 | 80.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l125_m1_e0 | het | 75.0000 | 80.0000 | 70.5882 | 92.6407 | 24 | 6 | 24 | 10 | 6 | 60.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l125_m2_e0 | het | 75.0000 | 80.0000 | 70.5882 | 93.5484 | 24 | 6 | 24 | 10 | 6 | 60.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l125_m2_e1 | het | 75.0000 | 80.0000 | 70.5882 | 93.6803 | 24 | 6 | 24 | 10 | 6 | 60.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 75.0000 | 80.0000 | 70.5882 | 97.4627 | 12 | 3 | 12 | 5 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 72.7273 | 75.0000 | 70.5882 | 76.0563 | 12 | 4 | 12 | 5 | 5 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | map_l100_m1_e0 | homalt | 75.0000 | 80.0000 | 70.5882 | 91.0995 | 12 | 3 | 12 | 5 | 2 | 40.0000 | |
| ciseli-custom | INDEL | D1_5 | map_l250_m2_e0 | het | 64.0842 | 58.6777 | 70.5882 | 97.7293 | 71 | 50 | 72 | 30 | 6 | 20.0000 | |