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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18101-18150 / 86044 show all | |||||||||||||||
| jpowers-varprowl | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.8385 | 97.6127 | 96.0765 | 79.7850 | 2944 | 72 | 2963 | 121 | 4 | 3.3058 | |
| jpowers-varprowl | INDEL | * | map_l125_m0_e0 | * | 93.0500 | 91.8367 | 94.2957 | 90.4640 | 810 | 72 | 810 | 49 | 30 | 61.2245 | |
| jpowers-varprowl | INDEL | D16_PLUS | HG002complexvar | homalt | 80.0982 | 75.0865 | 85.8268 | 71.4607 | 217 | 72 | 218 | 36 | 33 | 91.6667 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 79.4286 | 65.8768 | 100.0000 | 53.6667 | 139 | 72 | 139 | 0 | 0 | ||
| jli-custom | SNP | * | map_l125_m1_e0 | homalt | 99.7452 | 99.5741 | 99.9169 | 62.6179 | 16833 | 72 | 16833 | 14 | 13 | 92.8571 | |
| jli-custom | SNP | tv | map_l250_m2_e0 | het | 97.5202 | 96.2887 | 98.7837 | 86.3722 | 1868 | 72 | 1868 | 23 | 8 | 34.7826 | |
| jli-custom | SNP | tv | map_l250_m2_e1 | het | 97.5522 | 96.3359 | 98.7996 | 86.4727 | 1893 | 72 | 1893 | 23 | 8 | 34.7826 | |
| ltrigg-rtg1 | INDEL | * | map_l150_m1_e0 | het | 95.1397 | 91.5789 | 98.9886 | 81.0946 | 783 | 72 | 783 | 8 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.8371 | 94.5372 | 95.1389 | 64.3074 | 1246 | 72 | 1233 | 63 | 60 | 95.2381 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6130 | 91.3876 | 98.0745 | 66.7520 | 764 | 72 | 764 | 15 | 13 | 86.6667 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e0 | het | 60.8031 | 45.0382 | 93.5484 | 89.8527 | 59 | 72 | 58 | 4 | 3 | 75.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.2553 | 94.7939 | 99.8479 | 50.8778 | 1311 | 72 | 1313 | 2 | 1 | 50.0000 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.3145 | 96.7288 | 99.9531 | 38.9223 | 2129 | 72 | 2130 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e1 | het | 95.6019 | 94.8864 | 96.3283 | 93.0623 | 1336 | 72 | 1338 | 51 | 5 | 9.8039 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.0522 | 89.5197 | 96.8750 | 80.6207 | 615 | 72 | 744 | 24 | 20 | 83.3333 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4418 | 98.9742 | 99.9138 | 61.4203 | 6947 | 72 | 6953 | 6 | 3 | 50.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.0716 | 89.6700 | 98.9276 | 37.7295 | 625 | 72 | 738 | 8 | 8 | 100.0000 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.9502 | 97.0480 | 96.8526 | 49.3747 | 2367 | 72 | 2431 | 79 | 39 | 49.3671 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.1605 | 98.5173 | 99.8122 | 66.6528 | 4784 | 72 | 4784 | 9 | 8 | 88.8889 | |
| asubramanian-gatk | INDEL | * | map_l125_m0_e0 | het | 89.6574 | 87.7342 | 91.6667 | 93.1495 | 515 | 72 | 517 | 47 | 2 | 4.2553 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 90.2544 | 90.2041 | 90.3047 | 58.2659 | 663 | 72 | 652 | 70 | 64 | 91.4286 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.6223 | 86.4151 | 99.7904 | 48.0392 | 458 | 72 | 476 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | * | map_l125_m1_e0 | homalt | 99.7275 | 99.5741 | 99.8813 | 63.4132 | 16833 | 72 | 16833 | 20 | 15 | 75.0000 | |
| bgallagher-sentieon | SNP | tv | map_l150_m1_e0 | * | 98.9592 | 99.3402 | 98.5810 | 76.0604 | 10840 | 72 | 10838 | 156 | 25 | 16.0256 | |
| bgallagher-sentieon | SNP | tv | map_l150_m2_e0 | * | 98.9822 | 99.3659 | 98.6015 | 77.4624 | 11283 | 72 | 11281 | 160 | 25 | 15.6250 | |
| bgallagher-sentieon | SNP | tv | map_l150_m2_e1 | * | 98.9952 | 99.3740 | 98.6193 | 77.4754 | 11430 | 72 | 11428 | 160 | 25 | 15.6250 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e1 | het | 95.9899 | 94.3218 | 97.7180 | 85.7871 | 1196 | 72 | 1199 | 28 | 4 | 14.2857 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.3660 | 65.0485 | 98.5401 | 58.3587 | 134 | 72 | 135 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m0_e0 | het | 98.8393 | 98.5874 | 99.0925 | 80.9472 | 5025 | 72 | 5023 | 46 | 8 | 17.3913 | |
| hfeng-pmm1 | SNP | tv | map_l125_m0_e0 | * | 99.1084 | 98.9142 | 99.3035 | 75.2093 | 6559 | 72 | 6558 | 46 | 13 | 28.2609 | |
| hfeng-pmm2 | INDEL | D16_PLUS | HG002complexvar | het | 95.7182 | 93.4959 | 98.0488 | 66.5579 | 1035 | 72 | 804 | 16 | 7 | 43.7500 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.4317 | 89.6700 | 99.7275 | 38.3193 | 625 | 72 | 732 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.1296 | 90.2834 | 98.3180 | 72.2646 | 669 | 72 | 643 | 11 | 9 | 81.8182 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7268 | 96.3470 | 99.1467 | 74.4062 | 1899 | 72 | 1859 | 16 | 8 | 50.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7268 | 96.3470 | 99.1467 | 74.4062 | 1899 | 72 | 1859 | 16 | 8 | 50.0000 | |
| jlack-gatk | INDEL | * | map_l100_m1_e0 | * | 95.3278 | 97.9922 | 92.8044 | 87.6441 | 3514 | 72 | 3521 | 273 | 26 | 9.5238 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.1497 | 98.3806 | 92.1243 | 67.5306 | 4374 | 72 | 4328 | 370 | 327 | 88.3784 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.1113 | 93.6897 | 96.5766 | 79.4254 | 1069 | 72 | 1072 | 38 | 21 | 55.2632 | |
| ghariani-varprowl | INDEL | D6_15 | map_l100_m2_e1 | hetalt | 0.0000 | 1.3699 | 0.0000 | 0.0000 | 1 | 72 | 0 | 0 | 0 | ||
| ghariani-varprowl | SNP | ti | map_l250_m2_e0 | het | 95.2267 | 97.7873 | 92.7967 | 92.2619 | 3182 | 72 | 3182 | 247 | 49 | 19.8381 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 73.6476 | 94.3083 | 60.4126 | 87.0492 | 1193 | 72 | 1230 | 806 | 74 | 9.1811 | |
| ghariani-varprowl | SNP | tv | map_l250_m1_e0 | * | 94.3742 | 97.2799 | 91.6370 | 91.1799 | 2575 | 72 | 2575 | 235 | 32 | 13.6170 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 37.8106 | 46.6667 | 31.7797 | 37.1505 | 63 | 72 | 300 | 644 | 513 | 79.6584 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 19.0476 | 12.1951 | 43.4783 | 96.2480 | 10 | 72 | 10 | 13 | 4 | 30.7692 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 46.2642 | 97.2779 | 30.3489 | 80.4847 | 2573 | 72 | 2627 | 6029 | 58 | 0.9620 | |
| gduggal-snapfb | SNP | tv | map_l250_m1_e0 | het | 94.3085 | 95.9709 | 92.7027 | 86.6223 | 1715 | 72 | 1715 | 135 | 48 | 35.5556 | |
| ghariani-varprowl | INDEL | * | map_siren | het | 91.4200 | 98.4028 | 85.3626 | 87.1990 | 4436 | 72 | 4438 | 761 | 424 | 55.7162 | |
| ghariani-varprowl | INDEL | D16_PLUS | HG002complexvar | homalt | 80.0982 | 75.0865 | 85.8268 | 71.4927 | 217 | 72 | 218 | 36 | 33 | 91.6667 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 79.4286 | 65.8768 | 100.0000 | 53.5117 | 139 | 72 | 139 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 2.7027 | 0.0000 | 0.0000 | 2 | 72 | 0 | 0 | 0 | ||