PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10651-10700 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 87.5160 | 85.8216 | 89.2788 | 67.7054 | 914 | 151 | 916 | 110 | 41 | 37.2727 | |
| ghariani-varprowl | SNP | ti | map_l250_m0_e0 | * | 94.5118 | 96.7883 | 92.3398 | 94.5924 | 1326 | 44 | 1326 | 110 | 17 | 15.4545 | |
| gduggal-snapvard | INDEL | D1_5 | map_l250_m2_e0 | * | 80.1166 | 97.8261 | 67.8363 | 95.0015 | 180 | 4 | 232 | 110 | 18 | 16.3636 | |
| gduggal-snapvard | INDEL | D1_5 | map_l250_m2_e1 | het | 73.8307 | 99.1803 | 58.8015 | 95.5890 | 121 | 1 | 157 | 110 | 17 | 15.4545 | |
| dgrover-gatk | SNP | * | map_l250_m2_e1 | het | 98.1329 | 98.3473 | 97.9194 | 91.5436 | 5177 | 87 | 5177 | 110 | 25 | 22.7273 | |
| dgrover-gatk | SNP | tv | map_l150_m1_e0 | het | 98.7950 | 99.1650 | 98.4277 | 80.3450 | 6888 | 58 | 6886 | 110 | 20 | 18.1818 | |
| egarrison-hhga | INDEL | I16_PLUS | * | het | 94.6145 | 93.4143 | 95.8459 | 68.1424 | 2539 | 179 | 2538 | 110 | 63 | 57.2727 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7221 | 99.9452 | 99.4999 | 76.1475 | 21887 | 12 | 21887 | 110 | 109 | 99.0909 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8289 | 99.1468 | 98.5131 | 59.7388 | 7321 | 63 | 7288 | 110 | 106 | 96.3636 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1645 | 97.0494 | 97.2799 | 70.1462 | 3947 | 120 | 3934 | 110 | 98 | 89.0909 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0742 | 96.5582 | 99.6386 | 56.1134 | 30327 | 1081 | 30328 | 110 | 94 | 85.4545 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0742 | 96.5582 | 99.6386 | 56.1134 | 30327 | 1081 | 30328 | 110 | 94 | 85.4545 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0502 | 96.8343 | 99.2971 | 55.9217 | 15539 | 508 | 15540 | 110 | 95 | 86.3636 | |
| hfeng-pmm3 | INDEL | I1_5 | * | het | 99.7016 | 99.5433 | 99.8604 | 59.2337 | 78680 | 361 | 78661 | 110 | 51 | 46.3636 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.7796 | 97.9625 | 99.6105 | 70.5385 | 28127 | 585 | 28128 | 110 | 10 | 9.0909 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.7796 | 97.9625 | 99.6105 | 70.5385 | 28127 | 585 | 28128 | 110 | 10 | 9.0909 | |
| jlack-gatk | INDEL | * | map_l125_m0_e0 | het | 90.1770 | 97.4446 | 83.9181 | 93.0825 | 572 | 15 | 574 | 110 | 2 | 1.8182 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2533 | 95.0967 | 97.4383 | 65.3458 | 4228 | 218 | 4184 | 110 | 105 | 95.4545 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 16.6667 | 93.6386 | 0 | 0 | 22 | 110 | 38 | 34.5455 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6801 | 99.7532 | 99.6071 | 56.0538 | 27890 | 69 | 27889 | 110 | 11 | 10.0000 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.2675 | 94.3265 | 98.2901 | 38.7683 | 6351 | 382 | 6323 | 110 | 70 | 63.6364 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.4300 | 93.8983 | 97.0125 | 53.6214 | 2493 | 162 | 3572 | 110 | 76 | 69.0909 | |
| ckim-dragen | INDEL | D1_5 | HG002complexvar | * | 99.5269 | 99.3917 | 99.6625 | 58.3864 | 32516 | 199 | 32478 | 110 | 86 | 78.1818 | |
| cchapple-custom | INDEL | * | map_l125_m1_e0 | * | 95.7860 | 96.5828 | 95.0023 | 86.4180 | 2035 | 72 | 2072 | 109 | 23 | 21.1009 | |
| ckim-gatk | INDEL | * | map_l100_m0_e0 | * | 95.8319 | 98.4005 | 93.3939 | 90.2135 | 1538 | 25 | 1541 | 109 | 10 | 9.1743 | |
| ckim-gatk | INDEL | * | map_l125_m1_e0 | het | 95.3358 | 98.5019 | 92.3669 | 91.9308 | 1315 | 20 | 1319 | 109 | 7 | 6.4220 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8560 | 99.1874 | 98.5268 | 58.9697 | 7324 | 60 | 7290 | 109 | 104 | 95.4128 | |
| astatham-gatk | INDEL | I16_PLUS | * | * | 97.4870 | 96.7226 | 98.2635 | 70.9237 | 6168 | 209 | 6168 | 109 | 84 | 77.0642 | |
| asubramanian-gatk | INDEL | * | map_l100_m2_e0 | * | 92.1174 | 87.8960 | 96.7646 | 96.1178 | 3246 | 447 | 3260 | 109 | 17 | 15.5963 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002compoundhet | * | 95.0525 | 94.7886 | 95.3179 | 35.3692 | 2219 | 122 | 2219 | 109 | 106 | 97.2477 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.3882 | 96.1994 | 96.5777 | 62.9694 | 3088 | 122 | 3076 | 109 | 106 | 97.2477 | |
| asubramanian-gatk | SNP | * | HG002complexvar | homalt | 98.0724 | 96.2540 | 99.9608 | 20.3588 | 277764 | 10810 | 277740 | 109 | 23 | 21.1009 | |
| anovak-vg | INDEL | * | map_l125_m0_e0 | homalt | 73.9644 | 80.6338 | 68.3140 | 87.4544 | 229 | 55 | 235 | 109 | 101 | 92.6606 | |
| qzeng-custom | INDEL | D16_PLUS | HG002complexvar | homalt | 82.7833 | 96.8858 | 72.2646 | 69.0795 | 280 | 9 | 284 | 109 | 30 | 27.5229 | |
| mlin-fermikit | INDEL | I16_PLUS | HG002complexvar | het | 86.1405 | 88.2707 | 84.1108 | 65.5276 | 587 | 78 | 577 | 109 | 105 | 96.3303 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.1967 | 97.8663 | 98.5292 | 39.4229 | 7293 | 159 | 7302 | 109 | 85 | 77.9817 | |
| qzeng-custom | SNP | ti | map_l250_m0_e0 | * | 67.6335 | 55.1825 | 87.3403 | 98.0910 | 756 | 614 | 752 | 109 | 86 | 78.8991 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002compoundhet | * | 97.8414 | 96.6244 | 99.0893 | 63.2729 | 11822 | 413 | 11860 | 109 | 80 | 73.3945 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.5688 | 98.7682 | 98.3702 | 77.3380 | 6575 | 82 | 6579 | 109 | 1 | 0.9174 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1392 | 98.8202 | 97.4675 | 78.5775 | 4188 | 50 | 4195 | 109 | 1 | 0.9174 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 62.0349 | 81.0976 | 50.2283 | 77.7439 | 133 | 31 | 110 | 109 | 107 | 98.1651 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 93.7592 | 93.1507 | 94.3756 | 73.2357 | 1836 | 135 | 1829 | 109 | 67 | 61.4679 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 93.7592 | 93.1507 | 94.3756 | 73.2357 | 1836 | 135 | 1829 | 109 | 67 | 61.4679 | |
| ndellapenna-hhga | INDEL | * | map_siren | het | 97.8580 | 98.1145 | 97.6028 | 80.6313 | 4423 | 85 | 4438 | 109 | 50 | 45.8716 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002complexvar | * | 97.1394 | 96.3787 | 97.9123 | 57.5494 | 5110 | 192 | 5112 | 109 | 99 | 90.8257 | |
| rpoplin-dv42 | SNP | ti | map_l100_m0_e0 | het | 99.0327 | 98.8486 | 99.2174 | 68.2957 | 13822 | 161 | 13819 | 109 | 66 | 60.5505 | |
| raldana-dualsentieon | INDEL | D16_PLUS | * | het | 96.7544 | 97.2143 | 96.2988 | 74.5638 | 3071 | 88 | 2836 | 109 | 82 | 75.2294 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 56.2841 | 56.5217 | 56.0484 | 43.7642 | 130 | 100 | 139 | 109 | 101 | 92.6606 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 69.9603 | 92.1053 | 56.4000 | 92.3571 | 140 | 12 | 141 | 109 | 7 | 6.4220 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 79.1172 | 68.0571 | 94.4698 | 74.1440 | 1860 | 873 | 1862 | 109 | 53 | 48.6239 | |