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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73351-73400 / 86044 show all | |||||||||||||||
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4291 | 98.7026 | 98.1570 | 66.1366 | 3880 | 51 | 3888 | 73 | 1 | 1.3699 | |
| jpowers-varprowl | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.4576 | 97.6253 | 95.3175 | 78.6292 | 1480 | 36 | 1486 | 73 | 21 | 28.7671 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.2548 | 98.6087 | 97.9035 | 45.6956 | 3402 | 48 | 3409 | 73 | 33 | 45.2055 | |
| rpoplin-dv42 | INDEL | * | map_siren | het | 98.2013 | 98.0257 | 98.3774 | 81.3714 | 4419 | 89 | 4426 | 73 | 37 | 50.6849 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e1 | het | 98.9153 | 98.0846 | 99.7602 | 53.1134 | 30367 | 593 | 30370 | 73 | 6 | 8.2192 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.1297 | 97.6301 | 96.6344 | 45.5436 | 2101 | 51 | 2096 | 73 | 71 | 97.2603 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.4635 | 97.1765 | 91.8979 | 57.1564 | 826 | 24 | 828 | 73 | 71 | 97.2603 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.5098 | 93.8352 | 95.1942 | 74.3325 | 1446 | 95 | 1446 | 73 | 39 | 53.4247 | |
| ndellapenna-hhga | SNP | ti | map_l100_m1_e0 | * | 99.3542 | 98.8671 | 99.8462 | 61.3943 | 47388 | 543 | 47390 | 73 | 38 | 52.0548 | |
| qzeng-custom | SNP | ti | map_l100_m1_e0 | homalt | 87.7858 | 78.5523 | 99.4792 | 55.9352 | 14108 | 3852 | 13944 | 73 | 71 | 97.2603 | |
| astatham-gatk | SNP | * | map_l125_m0_e0 | * | 93.0056 | 87.2530 | 99.5702 | 78.3613 | 16914 | 2471 | 16911 | 73 | 29 | 39.7260 | |
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 69.3277 | 0 | 0 | 0 | 73 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5183 | 97.1076 | 97.9326 | 72.3189 | 3458 | 103 | 3458 | 73 | 57 | 78.0822 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2443 | 95.7292 | 98.8082 | 63.2331 | 6052 | 270 | 6052 | 73 | 63 | 86.3014 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2443 | 95.7292 | 98.8082 | 63.2331 | 6052 | 270 | 6052 | 73 | 63 | 86.3014 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 22.4849 | 18.3099 | 29.1262 | 29.9320 | 26 | 116 | 30 | 73 | 61 | 83.5616 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 15.5475 | 9.5361 | 42.0635 | 45.6897 | 37 | 351 | 53 | 73 | 43 | 58.9041 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | het | 93.5851 | 96.0000 | 91.2888 | 86.8239 | 816 | 34 | 765 | 73 | 70 | 95.8904 | |
| cchapple-custom | INDEL | * | map_l150_m1_e0 | het | 93.9997 | 95.9064 | 92.1674 | 89.8264 | 820 | 35 | 859 | 73 | 11 | 15.0685 | |
| cchapple-custom | INDEL | D1_5 | HG002complexvar | het | 99.3604 | 99.0657 | 99.6568 | 53.2015 | 20571 | 194 | 21196 | 73 | 60 | 82.1918 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.5988 | 98.6711 | 89.0226 | 42.7218 | 594 | 8 | 592 | 73 | 71 | 97.2603 | |
| ciseli-custom | INDEL | * | map_l150_m1_e0 | homalt | 63.4966 | 53.8961 | 77.2586 | 91.1399 | 249 | 213 | 248 | 73 | 53 | 72.6027 | |
| ckim-dragen | SNP | tv | map_l250_m1_e0 | het | 96.1474 | 96.3626 | 95.9331 | 90.7498 | 1722 | 65 | 1722 | 73 | 4 | 5.4795 | |
| ckim-gatk | INDEL | * | map_l125_m0_e0 | * | 95.2938 | 98.5261 | 92.2669 | 92.7054 | 869 | 13 | 871 | 73 | 6 | 8.2192 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m1_e0 | het | 94.7425 | 99.0358 | 90.8060 | 91.1611 | 719 | 7 | 721 | 73 | 4 | 5.4795 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 72.4655 | 91.2162 | 60.1093 | 74.5125 | 135 | 13 | 110 | 73 | 72 | 98.6301 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 23.8908 | 17.7515 | 36.5217 | 59.5070 | 30 | 139 | 42 | 73 | 70 | 95.8904 | |
| dgrover-gatk | SNP | * | * | homalt | 99.9839 | 99.9740 | 99.9938 | 17.2643 | 1179854 | 307 | 1179830 | 73 | 63 | 86.3014 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.3121 | 98.9474 | 93.8136 | 84.0303 | 1316 | 14 | 1107 | 73 | 64 | 87.6712 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e0 | het | 96.2758 | 95.7521 | 96.8053 | 90.9383 | 2209 | 98 | 2212 | 73 | 11 | 15.0685 | |
| 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 | SNP | ti | map_l125_m2_e0 | het | 99.2396 | 98.8716 | 99.6103 | 71.4782 | 18663 | 213 | 18659 | 73 | 18 | 24.6575 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0944 | 96.6971 | 99.5326 | 66.9886 | 15546 | 531 | 15546 | 73 | 43 | 58.9041 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0944 | 96.6971 | 99.5326 | 66.9886 | 15546 | 531 | 15546 | 73 | 43 | 58.9041 | |
| 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 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 85.5705 | 97.7901 | 76.0656 | 82.2571 | 354 | 8 | 232 | 73 | 71 | 97.2603 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4066 | 99.4274 | 99.3858 | 50.7439 | 11807 | 68 | 11812 | 73 | 23 | 31.5068 | |
| jli-custom | INDEL | * | HG002complexvar | het | 99.4410 | 99.0457 | 99.8394 | 56.1111 | 45771 | 441 | 45384 | 73 | 32 | 43.8356 | |
| jlack-gatk | SNP | tv | HG002compoundhet | het | 98.9462 | 99.4650 | 98.4329 | 56.5753 | 4648 | 25 | 4648 | 74 | 14 | 18.9189 | |
| hfeng-pmm3 | SNP | * | map_l150_m0_e0 | het | 98.9660 | 98.8665 | 99.0658 | 81.0107 | 7850 | 90 | 7847 | 74 | 2 | 2.7027 | |
| hfeng-pmm3 | SNP | ti | map_l150_m2_e0 | het | 99.3316 | 99.2392 | 99.4243 | 76.7413 | 12783 | 98 | 12779 | 74 | 8 | 10.8108 | |
| hfeng-pmm1 | SNP | ti | map_l125_m2_e1 | het | 99.2454 | 98.8841 | 99.6094 | 71.5149 | 18874 | 213 | 18870 | 74 | 18 | 24.3243 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m0_e0 | het | 89.4716 | 98.2609 | 82.1256 | 91.8808 | 339 | 6 | 340 | 74 | 2 | 2.7027 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.1021 | 96.7944 | 99.4457 | 64.3875 | 13316 | 441 | 13275 | 74 | 59 | 79.7297 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.1021 | 96.7944 | 99.4457 | 64.3875 | 13316 | 441 | 13275 | 74 | 59 | 79.7297 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 75.5473 | 67.1642 | 86.3216 | 61.1351 | 360 | 176 | 467 | 74 | 64 | 86.4865 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 88.7085 | 94.0415 | 83.9479 | 92.5405 | 363 | 23 | 387 | 74 | 11 | 14.8649 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.5296 | 98.8181 | 98.2427 | 79.9696 | 4097 | 49 | 4137 | 74 | 2 | 2.7027 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0022 | 98.7524 | 97.2633 | 81.0644 | 2612 | 33 | 2630 | 74 | 2 | 2.7027 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 82.5569 | 70.6298 | 99.3305 | 60.9945 | 10889 | 4528 | 10979 | 74 | 74 | 100.0000 | |