PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
35451-35500 / 86044 show all | |||||||||||||||
| dgrover-gatk | SNP | ti | segdup | het | 99.5358 | 99.8337 | 99.2397 | 90.9955 | 12010 | 20 | 12008 | 92 | 3 | 3.2609 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 47.3830 | 86.3690 | 32.6467 | 86.8151 | 735 | 116 | 729 | 1504 | 49 | 3.2580 | |
| ciseli-custom | SNP | ti | map_l100_m0_e0 | het | 78.5726 | 72.8313 | 85.2966 | 78.4054 | 10184 | 3799 | 10181 | 1755 | 57 | 3.2479 | |
| ciseli-custom | SNP | * | map_l125_m2_e1 | het | 76.8097 | 71.1707 | 83.4191 | 81.2554 | 21095 | 8545 | 21070 | 4188 | 136 | 3.2474 | |
| mlin-fermikit | SNP | * | map_l150_m2_e0 | het | 55.5672 | 38.7672 | 98.0639 | 69.9736 | 7805 | 12328 | 7800 | 154 | 5 | 3.2468 | |
| ckim-gatk | SNP | tv | map_l100_m2_e0 | het | 91.4895 | 86.9494 | 96.5299 | 84.2447 | 13718 | 2059 | 13714 | 493 | 16 | 3.2454 | |
| gduggal-snapplat | INDEL | I1_5 | segdup | * | 78.0848 | 75.0708 | 81.3508 | 96.7377 | 795 | 264 | 807 | 185 | 6 | 3.2432 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 79.0227 | 95.1074 | 67.5916 | 78.7307 | 43466 | 2236 | 43994 | 21094 | 684 | 3.2426 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 79.0227 | 95.1074 | 67.5916 | 78.7307 | 43466 | 2236 | 43994 | 21094 | 684 | 3.2426 | |
| ckim-gatk | SNP | tv | map_l100_m2_e1 | het | 91.5697 | 87.0686 | 96.5616 | 84.2465 | 13877 | 2061 | 13873 | 494 | 16 | 3.2389 | |
| jmaeng-gatk | SNP | tv | map_l125_m1_e0 | het | 87.4372 | 80.5254 | 95.6471 | 87.5400 | 8154 | 1972 | 8152 | 371 | 12 | 3.2345 | |
| ciseli-custom | SNP | * | map_l250_m0_e0 | het | 62.5646 | 57.7025 | 68.3215 | 96.1752 | 869 | 637 | 867 | 402 | 13 | 3.2338 | |
| gduggal-bwavard | SNP | * | map_l250_m2_e1 | * | 90.6461 | 97.4959 | 84.6957 | 92.1274 | 7787 | 200 | 7709 | 1393 | 45 | 3.2304 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 0.0000 | 64.7727 | 0 | 0 | 0 | 31 | 1 | 3.2258 | ||
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 0.0000 | 64.7727 | 0 | 0 | 0 | 31 | 1 | 3.2258 | ||
| ltrigg-rtg2 | SNP | tv | map_siren | het | 99.1276 | 98.6962 | 99.5628 | 47.7162 | 28236 | 373 | 28241 | 124 | 4 | 3.2258 | |
| ndellapenna-hhga | SNP | ti | segdup | het | 99.4554 | 99.4264 | 99.4843 | 88.9326 | 11961 | 69 | 11961 | 62 | 2 | 3.2258 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 94.1085 | 98.8889 | 89.7690 | 62.4535 | 267 | 3 | 272 | 31 | 1 | 3.2258 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | * | 70.8577 | 55.1491 | 99.0796 | 88.2228 | 16687 | 13571 | 16685 | 155 | 5 | 3.2258 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 33.1034 | 85.7143 | 20.5128 | 82.6667 | 6 | 1 | 8 | 31 | 1 | 3.2258 | |
| ciseli-custom | SNP | * | map_l125_m2_e0 | het | 76.6942 | 71.0212 | 83.3520 | 81.2570 | 20822 | 8496 | 20798 | 4154 | 134 | 3.2258 | |
| jmaeng-gatk | SNP | tv | map_l250_m2_e1 | * | 69.5004 | 54.3896 | 96.2379 | 96.4989 | 1586 | 1330 | 1586 | 62 | 2 | 3.2258 | |
| ltrigg-rtg2 | INDEL | C1_5 | * | het | 88.0848 | 88.8889 | 87.2951 | 96.3468 | 8 | 1 | 426 | 62 | 2 | 3.2258 | |
| ciseli-custom | SNP | * | HG002complexvar | het | 95.7970 | 95.7987 | 95.7952 | 20.3525 | 445943 | 19557 | 439539 | 19293 | 621 | 3.2188 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.1371 | 99.6801 | 90.9901 | 43.0795 | 4674 | 15 | 4393 | 435 | 14 | 3.2184 | |
| mlin-fermikit | SNP | * | map_l125_m2_e1 | het | 62.1228 | 45.4352 | 98.1839 | 65.4086 | 13467 | 16173 | 13462 | 249 | 8 | 3.2129 | |
| mlin-fermikit | SNP | * | map_l100_m1_e0 | het | 71.0748 | 55.5458 | 98.6565 | 54.0604 | 25195 | 20164 | 25187 | 343 | 11 | 3.2070 | |
| ltrigg-rtg2 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.2799 | 97.7540 | 96.8105 | 66.5390 | 4657 | 107 | 4735 | 156 | 5 | 3.2051 | |
| ciseli-custom | SNP | ti | map_l125_m0_e0 | het | 74.4671 | 68.2803 | 81.8868 | 84.0446 | 5642 | 2621 | 5642 | 1248 | 40 | 3.2051 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e1 | * | 71.0090 | 55.3306 | 99.0860 | 88.2132 | 16914 | 13655 | 16912 | 156 | 5 | 3.2051 | |
| ciseli-custom | SNP | ti | map_l150_m0_e0 | het | 72.0997 | 66.3920 | 78.8811 | 87.9805 | 3384 | 1713 | 3384 | 906 | 29 | 3.2009 | |
| ciseli-custom | SNP | * | map_l250_m1_e0 | het | 61.9329 | 56.9506 | 67.8706 | 93.2521 | 2708 | 2047 | 2706 | 1281 | 41 | 3.2006 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 82.7666 | 91.0205 | 75.8851 | 82.6190 | 17820 | 1758 | 17704 | 5626 | 180 | 3.1994 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 82.7666 | 91.0205 | 75.8851 | 82.6190 | 17820 | 1758 | 17704 | 5626 | 180 | 3.1994 | |
| ckim-vqsr | SNP | * | map_l100_m1_e0 | het | 85.1033 | 74.6313 | 98.9938 | 84.0158 | 33852 | 11507 | 33844 | 344 | 11 | 3.1977 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.6942 | 99.6620 | 93.8981 | 67.0587 | 2949 | 10 | 2893 | 188 | 6 | 3.1915 | |
| jmaeng-gatk | SNP | ti | * | het | 99.6655 | 99.6418 | 99.6893 | 25.0371 | 1277299 | 4592 | 1277249 | 3981 | 127 | 3.1902 | |
| ltrigg-rtg2 | SNP | * | * | het | 99.8157 | 99.8572 | 99.7742 | 16.9842 | 1870922 | 2676 | 1871158 | 4235 | 135 | 3.1877 | |
| mlin-fermikit | SNP | * | map_l150_m2_e1 | het | 55.7873 | 38.9825 | 98.0593 | 70.1751 | 7938 | 12425 | 7933 | 157 | 5 | 3.1847 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 52.6631 | 81.4516 | 38.9105 | 99.8116 | 101 | 23 | 100 | 157 | 5 | 3.1847 | |
| gduggal-snapfb | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.6868 | 98.6611 | 72.6589 | 66.9839 | 17612 | 239 | 17869 | 6724 | 214 | 3.1826 | |
| gduggal-bwavard | SNP | * | map_l250_m2_e0 | * | 90.6036 | 97.5016 | 84.6171 | 92.0596 | 7688 | 197 | 7613 | 1384 | 44 | 3.1792 | |
| eyeh-varpipe | SNP | * | map_l250_m0_e0 | het | 97.4164 | 99.0704 | 95.8167 | 94.5377 | 1492 | 14 | 1443 | 63 | 2 | 3.1746 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m2_e1 | het | 98.8079 | 98.0299 | 99.5983 | 53.4836 | 15624 | 314 | 15620 | 63 | 2 | 3.1746 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 0.0000 | 0.0000 | 7.3529 | 85.3132 | 0 | 0 | 10 | 126 | 4 | 3.1746 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 0.0000 | 0.0000 | 7.3529 | 85.0549 | 0 | 0 | 10 | 126 | 4 | 3.1746 | |
| ciseli-custom | SNP | * | map_l125_m1_e0 | het | 76.3493 | 70.6009 | 83.1168 | 80.0504 | 20045 | 8347 | 20022 | 4067 | 129 | 3.1719 | |
| ckim-gatk | SNP | * | segdup | * | 98.8880 | 99.3409 | 98.4392 | 93.5811 | 27882 | 185 | 27876 | 442 | 14 | 3.1674 | |
| jmaeng-gatk | SNP | tv | map_l125_m2_e0 | het | 87.7835 | 81.0668 | 95.7136 | 88.2752 | 8465 | 1977 | 8463 | 379 | 12 | 3.1662 | |
| jmaeng-gatk | SNP | tv | map_l100_m1_e0 | * | 88.1452 | 80.4375 | 97.4866 | 80.6623 | 19708 | 4793 | 19704 | 508 | 16 | 3.1496 | |