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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
29951-30000 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e0 | * | 98.8043 | 99.1123 | 98.4982 | 84.6307 | 1898 | 17 | 1902 | 29 | 6 | 20.6897 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e1 | * | 98.8190 | 99.1233 | 98.5166 | 84.7206 | 1922 | 17 | 1926 | 29 | 6 | 20.6897 | |
| qzeng-custom | INDEL | * | map_l100_m0_e0 | homalt | 82.8374 | 73.4774 | 94.9301 | 85.9563 | 374 | 135 | 543 | 29 | 6 | 20.6897 | |
| dgrover-gatk | SNP | tv | map_l150_m1_e0 | * | 99.0155 | 99.0927 | 98.9384 | 77.4338 | 10813 | 99 | 10811 | 116 | 24 | 20.6897 | |
| ckim-isaac | SNP | ti | map_l100_m0_e0 | * | 75.5708 | 60.8148 | 99.7815 | 66.9687 | 13240 | 8531 | 13241 | 29 | 6 | 20.6897 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1968 | 99.5561 | 98.8400 | 40.7302 | 2467 | 11 | 2471 | 29 | 6 | 20.6897 | |
| gduggal-snapfb | INDEL | * | map_l150_m0_e0 | het | 90.4453 | 89.4428 | 91.4706 | 88.9359 | 305 | 36 | 311 | 29 | 6 | 20.6897 | |
| hfeng-pmm1 | SNP | ti | map_l150_m0_e0 | * | 99.1145 | 98.9696 | 99.2598 | 79.4196 | 7780 | 81 | 7778 | 58 | 12 | 20.6897 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.8239 | 96.0191 | 97.6423 | 76.7662 | 1206 | 50 | 1201 | 29 | 6 | 20.6897 | |
| hfeng-pmm3 | SNP | tv | HG002complexvar | het | 99.7826 | 99.5854 | 99.9807 | 20.9857 | 150106 | 625 | 150027 | 29 | 6 | 20.6897 | |
| cchapple-custom | SNP | * | map_l100_m1_e0 | het | 96.8285 | 97.8593 | 95.8192 | 72.2809 | 44388 | 971 | 44440 | 1939 | 401 | 20.6808 | |
| anovak-vg | SNP | tv | map_l250_m0_e0 | het | 72.5540 | 81.1189 | 65.6250 | 96.1522 | 464 | 108 | 462 | 242 | 50 | 20.6612 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.8252 | 96.8237 | 91.0068 | 91.2594 | 884 | 29 | 931 | 92 | 19 | 20.6522 | |
| cchapple-custom | SNP | * | map_l100_m2_e1 | * | 97.5551 | 97.7575 | 97.3536 | 69.9828 | 73061 | 1676 | 73060 | 1986 | 410 | 20.6445 | |
| jpowers-varprowl | SNP | ti | HG002complexvar | het | 99.4252 | 98.9938 | 99.8603 | 18.1914 | 311597 | 3167 | 311707 | 436 | 90 | 20.6422 | |
| cchapple-custom | SNP | * | map_l100_m2_e0 | het | 96.8591 | 97.8857 | 95.8537 | 73.9797 | 45418 | 981 | 45473 | 1967 | 406 | 20.6406 | |
| jmaeng-gatk | INDEL | D1_5 | * | het | 99.4941 | 99.6997 | 99.2893 | 60.9724 | 87311 | 263 | 87316 | 625 | 129 | 20.6400 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 67.0995 | 63.6364 | 70.9612 | 72.1865 | 1372 | 784 | 1410 | 577 | 119 | 20.6239 | |
| ghariani-varprowl | SNP | ti | map_l100_m2_e1 | * | 98.6004 | 99.0118 | 98.1924 | 70.8832 | 48996 | 489 | 48998 | 902 | 186 | 20.6208 | |
| gduggal-bwafb | SNP | * | map_l100_m2_e0 | * | 99.0302 | 99.1280 | 98.9327 | 69.1496 | 73319 | 645 | 73321 | 791 | 163 | 20.6068 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e0 | het | 99.2165 | 99.3060 | 99.1273 | 77.0589 | 18745 | 131 | 18741 | 165 | 34 | 20.6061 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 80.3663 | 84.4740 | 76.6396 | 52.9071 | 5011 | 921 | 3681 | 1122 | 231 | 20.5882 | |
| qzeng-custom | SNP | tv | HG002compoundhet | het | 97.5388 | 97.4321 | 97.6458 | 58.3399 | 4553 | 120 | 5641 | 136 | 28 | 20.5882 | |
| bgallagher-sentieon | SNP | ti | map_l250_m0_e0 | * | 98.1132 | 98.6861 | 97.5469 | 93.1376 | 1352 | 18 | 1352 | 34 | 7 | 20.5882 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 83.1767 | 75.0649 | 93.2540 | 64.2807 | 289 | 96 | 470 | 34 | 7 | 20.5882 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 72.2144 | 57.9892 | 95.6871 | 78.8764 | 2261 | 1638 | 2263 | 102 | 21 | 20.5882 | |
| ciseli-custom | INDEL | D6_15 | map_siren | het | 69.4186 | 71.7857 | 67.2026 | 85.2327 | 201 | 79 | 209 | 102 | 21 | 20.5882 | |
| gduggal-bwafb | SNP | * | map_l100_m2_e1 | * | 99.0356 | 99.1356 | 98.9358 | 69.1822 | 74091 | 646 | 74093 | 797 | 164 | 20.5772 | |
| cchapple-custom | SNP | * | map_l100_m2_e1 | het | 96.8714 | 97.9018 | 95.8624 | 74.0033 | 45914 | 984 | 45967 | 1984 | 408 | 20.5645 | |
| gduggal-bwafb | SNP | tv | map_l150_m2_e0 | * | 98.5004 | 98.6262 | 98.3749 | 78.4095 | 11199 | 156 | 11199 | 185 | 38 | 20.5405 | |
| qzeng-custom | SNP | * | * | * | 99.4966 | 99.2413 | 99.7533 | 22.5407 | 3031458 | 23176 | 3012983 | 7452 | 1530 | 20.5314 | |
| gduggal-snapfb | INDEL | D1_5 | map_l150_m1_e0 | * | 95.2145 | 95.8159 | 94.6207 | 88.3889 | 687 | 30 | 686 | 39 | 8 | 20.5128 | |
| gduggal-snapfb | INDEL | D1_5 | map_l150_m2_e0 | * | 95.5016 | 96.0682 | 94.9416 | 89.0312 | 733 | 30 | 732 | 39 | 8 | 20.5128 | |
| ckim-isaac | SNP | ti | map_l125_m2_e1 | * | 75.3035 | 60.4665 | 99.7895 | 72.3331 | 18484 | 12085 | 18484 | 39 | 8 | 20.5128 | |
| bgallagher-sentieon | SNP | ti | map_l250_m1_e0 | het | 98.1612 | 98.9218 | 97.4121 | 90.4001 | 2936 | 32 | 2936 | 78 | 16 | 20.5128 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2976 | 99.4123 | 99.1832 | 67.8581 | 4736 | 28 | 4736 | 39 | 8 | 20.5128 | |
| ghariani-varprowl | SNP | ti | map_l250_m1_e0 | het | 94.9386 | 97.6415 | 92.3813 | 91.9764 | 2898 | 70 | 2898 | 239 | 49 | 20.5021 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e1 | het | 99.2226 | 99.3137 | 99.1317 | 77.0880 | 18956 | 131 | 18952 | 166 | 34 | 20.4819 | |
| cchapple-custom | SNP | tv | map_l150_m0_e0 | * | 95.4922 | 95.9751 | 95.0142 | 82.7299 | 4006 | 168 | 4002 | 210 | 43 | 20.4762 | |
| cchapple-custom | SNP | tv | map_l150_m0_e0 | het | 94.6151 | 96.4122 | 92.8838 | 85.0097 | 2741 | 102 | 2741 | 210 | 43 | 20.4762 | |
| ghariani-varprowl | SNP | * | map_l125_m2_e0 | * | 97.9545 | 98.7522 | 97.1696 | 76.9826 | 46140 | 583 | 46140 | 1344 | 275 | 20.4613 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 91.4324 | 84.8960 | 99.0592 | 66.8074 | 9263 | 1648 | 9266 | 88 | 18 | 20.4545 | |
| gduggal-snapfb | SNP | tv | map_l250_m0_e0 | het | 93.7015 | 94.9301 | 92.5043 | 90.6200 | 543 | 29 | 543 | 44 | 9 | 20.4545 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e0 | * | 98.7380 | 97.6422 | 99.8587 | 65.4099 | 31101 | 751 | 31104 | 44 | 9 | 20.4545 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e1 | * | 98.7491 | 97.6622 | 99.8603 | 65.5073 | 31457 | 753 | 31463 | 44 | 9 | 20.4545 | |
| astatham-gatk | INDEL | * | map_l100_m0_e0 | * | 96.7251 | 96.2892 | 97.1649 | 87.6728 | 1505 | 58 | 1508 | 44 | 9 | 20.4545 | |
| astatham-gatk | INDEL | * | map_l125_m2_e0 | * | 96.5138 | 95.1275 | 97.9410 | 89.1008 | 2089 | 107 | 2093 | 44 | 9 | 20.4545 | |
| astatham-gatk | INDEL | * | map_l125_m2_e1 | * | 96.4891 | 95.0562 | 97.9658 | 89.1866 | 2115 | 110 | 2119 | 44 | 9 | 20.4545 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e0 | * | 98.3684 | 98.7250 | 98.0144 | 88.4715 | 2168 | 28 | 2172 | 44 | 9 | 20.4545 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | * | 98.3668 | 98.6966 | 98.0392 | 88.5574 | 2196 | 29 | 2200 | 44 | 9 | 20.4545 | |