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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
21551-21600 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | D6_15 | HG002complexvar | het | 98.8845 | 98.7179 | 99.0517 | 59.4483 | 3080 | 40 | 3029 | 29 | 25 | 86.2069 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0355 | 98.4951 | 99.5819 | 70.6787 | 2618 | 40 | 2620 | 11 | 3 | 27.2727 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.2739 | 96.9720 | 99.6112 | 61.8511 | 1281 | 40 | 1281 | 5 | 3 | 60.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5562 | 99.3991 | 99.7137 | 77.6038 | 6617 | 40 | 6617 | 19 | 5 | 26.3158 | |
| jmaeng-gatk | INDEL | * | map_l100_m1_e0 | het | 96.0483 | 98.2103 | 93.9795 | 90.0412 | 2195 | 40 | 2201 | 141 | 14 | 9.9291 | |
| jmaeng-gatk | INDEL | * | map_l125_m1_e0 | * | 96.6159 | 98.1016 | 95.1746 | 90.8498 | 2067 | 40 | 2071 | 105 | 11 | 10.4762 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.2685 | 95.4338 | 95.1039 | 78.5282 | 836 | 40 | 641 | 33 | 33 | 100.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.5421 | 97.3208 | 99.7944 | 32.2970 | 1453 | 40 | 1456 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m2_e0 | het | 97.1596 | 94.9559 | 99.4681 | 76.3893 | 753 | 40 | 748 | 4 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m2_e1 | het | 97.1585 | 95.0617 | 99.3498 | 76.6474 | 770 | 40 | 764 | 5 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7742 | 99.6391 | 99.9096 | 52.3779 | 11044 | 40 | 11055 | 10 | 7 | 70.0000 | |
| ltrigg-rtg2 | INDEL | * | HG002compoundhet | homalt | 87.5156 | 94.1691 | 81.7402 | 67.9371 | 646 | 40 | 667 | 149 | 147 | 98.6577 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m0_e0 | het | 95.8851 | 93.1857 | 98.7455 | 80.3036 | 547 | 40 | 551 | 7 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 71.1111 | 76.1905 | 66.6667 | 71.4710 | 128 | 40 | 128 | 64 | 63 | 98.4375 | |
| ltrigg-rtg1 | INDEL | * | map_l150_m0_e0 | * | 95.2820 | 92.2179 | 98.5567 | 87.0112 | 474 | 40 | 478 | 7 | 2 | 28.5714 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m0_e0 | het | 96.3290 | 93.2318 | 99.6390 | 71.5167 | 551 | 40 | 552 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l150_m2_e1 | * | 97.0436 | 94.8586 | 99.3316 | 83.4403 | 738 | 40 | 743 | 5 | 2 | 40.0000 | |
| jpowers-varprowl | INDEL | * | map_l125_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 40 | 0 | 0 | 0 | |||
| jpowers-varprowl | INDEL | * | map_l150_m2_e1 | homalt | 95.1579 | 91.8699 | 98.6900 | 87.1240 | 452 | 40 | 452 | 6 | 4 | 66.6667 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6637 | 96.7532 | 98.5915 | 61.0394 | 1192 | 40 | 1190 | 17 | 16 | 94.1176 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.1691 | 88.9807 | 100.0000 | 46.6772 | 323 | 40 | 337 | 0 | 0 | ||
| ckim-dragen | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.6398 | 98.0237 | 99.2636 | 68.7768 | 1984 | 40 | 2022 | 15 | 3 | 20.0000 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2575 | 99.0562 | 99.4596 | 77.8403 | 4198 | 40 | 4233 | 23 | 9 | 39.1304 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m1_e0 | * | 97.2897 | 97.0127 | 97.5684 | 82.3852 | 1299 | 40 | 1284 | 32 | 10 | 31.2500 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6012 | 95.7537 | 99.5214 | 52.8600 | 902 | 40 | 3535 | 17 | 15 | 88.2353 | |
| ciseli-custom | INDEL | * | map_l125_m2_e0 | hetalt | 0.0000 | 4.7619 | 0.0000 | 0.0000 | 2 | 40 | 0 | 0 | 0 | ||
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6131 | 99.4059 | 99.8211 | 49.8317 | 6693 | 40 | 6695 | 12 | 7 | 58.3333 | |
| ciseli-custom | INDEL | D6_15 | map_l150_m2_e1 | * | 54.5455 | 52.9412 | 56.2500 | 93.9440 | 45 | 40 | 45 | 35 | 16 | 45.7143 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 27.8146 | 34.4262 | 23.3333 | 82.2835 | 21 | 40 | 21 | 69 | 62 | 89.8551 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m2_e1 | hetalt | 0.0000 | 11.1111 | 0.0000 | 0.0000 | 5 | 40 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 93.8462 | 0.0000 | 0.0000 | 610 | 40 | 0 | 0 | 0 | ||
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 75.9729 | 97.1161 | 62.3900 | 67.1535 | 1347 | 40 | 1347 | 812 | 4 | 0.4926 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.6367 | 99.6517 | 93.7987 | 63.9277 | 11444 | 40 | 11435 | 756 | 746 | 98.6772 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7838 | 99.7565 | 99.8111 | 59.5001 | 16389 | 40 | 16384 | 31 | 5 | 16.1290 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0730 | 98.4951 | 99.6577 | 70.6945 | 2618 | 40 | 2620 | 9 | 3 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.0377 | 88.9807 | 99.7041 | 43.6667 | 323 | 40 | 337 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4994 | 99.8555 | 99.1459 | 64.4153 | 27638 | 40 | 27628 | 238 | 20 | 8.4034 | |
| anovak-vg | INDEL | D6_15 | segdup | hetalt | 0.0000 | 18.3673 | 0.0000 | 0.0000 | 9 | 40 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 26.5613 | 34.4262 | 21.6216 | 60.9155 | 21 | 40 | 24 | 87 | 40 | 45.9770 | |
| asubramanian-gatk | INDEL | D1_5 | HG002complexvar | homalt | 99.7403 | 99.6226 | 99.8582 | 60.0860 | 10558 | 40 | 10565 | 15 | 13 | 86.6667 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8815 | 98.4877 | 99.2784 | 83.9265 | 2605 | 40 | 2614 | 19 | 9 | 47.3684 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.5924 | 95.7627 | 99.4934 | 31.8370 | 904 | 40 | 982 | 5 | 5 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l250_m1_e0 | homalt | 98.6465 | 97.5109 | 99.8089 | 85.2776 | 1567 | 40 | 1567 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l250_m2_e0 | homalt | 98.7576 | 97.7130 | 99.8248 | 86.3182 | 1709 | 40 | 1709 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l250_m2_e1 | homalt | 98.7739 | 97.7427 | 99.8271 | 86.3568 | 1732 | 40 | 1732 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3879 | 98.8406 | 99.9413 | 37.5183 | 3410 | 40 | 3407 | 2 | 1 | 50.0000 | |
| astatham-gatk | SNP | tv | map_l125_m0_e0 | homalt | 98.9564 | 98.1990 | 99.7257 | 68.9479 | 2181 | 40 | 2181 | 6 | 4 | 66.6667 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3023 | 95.7627 | 98.8922 | 32.9054 | 904 | 40 | 982 | 11 | 10 | 90.9091 | |
| astatham-gatk | INDEL | D16_PLUS | HG002complexvar | * | 97.6735 | 97.5654 | 97.7819 | 66.9248 | 1603 | 40 | 1587 | 36 | 28 | 77.7778 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.7010 | 99.6632 | 99.7389 | 50.8366 | 11835 | 40 | 11840 | 31 | 16 | 51.6129 | |