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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
46401-46450 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m0_e0 | het | 95.1613 | 98.3333 | 92.1875 | 89.6272 | 59 | 1 | 59 | 5 | 1 | 20.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m0_e0 | het | 95.1613 | 98.3333 | 92.1875 | 91.1234 | 59 | 1 | 59 | 5 | 1 | 20.0000 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m0_e0 | het | 95.1613 | 98.3333 | 92.1875 | 91.2449 | 59 | 1 | 59 | 5 | 1 | 20.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l250_m2_e0 | * | 94.6665 | 97.2826 | 92.1875 | 94.6711 | 179 | 5 | 177 | 15 | 1 | 6.6667 | |
| ckim-dragen | INDEL | D1_5 | map_l250_m2_e1 | het | 94.7887 | 97.5410 | 92.1875 | 96.1481 | 119 | 3 | 118 | 10 | 1 | 10.0000 | |
| ckim-dragen | INDEL | I1_5 | func_cds | het | 95.9350 | 100.0000 | 92.1875 | 52.9412 | 59 | 0 | 59 | 5 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | * | map_l125_m0_e0 | het | 91.0262 | 89.8926 | 92.1888 | 87.3834 | 11384 | 1280 | 11389 | 965 | 535 | 55.4404 | |
| ghariani-varprowl | INDEL | I1_5 | map_l150_m2_e0 | * | 93.8505 | 95.5684 | 92.1933 | 92.5267 | 496 | 23 | 496 | 42 | 11 | 26.1905 | |
| gduggal-snapvard | SNP | tv | map_l100_m2_e1 | * | 94.5392 | 97.0059 | 92.1948 | 76.2078 | 24526 | 757 | 24427 | 2068 | 154 | 7.4468 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.9391 | 100.0000 | 92.1951 | 65.8902 | 188 | 0 | 189 | 16 | 16 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.2061 | 98.4144 | 92.2003 | 46.1270 | 3600 | 58 | 3700 | 313 | 294 | 93.9297 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 21.7822 | 12.3499 | 92.2018 | 54.2977 | 72 | 511 | 201 | 17 | 17 | 100.0000 | |
| astatham-gatk | INDEL | * | map_l250_m2_e0 | het | 93.9252 | 95.7143 | 92.2018 | 96.5943 | 201 | 9 | 201 | 17 | 2 | 11.7647 | |
| egarrison-hhga | INDEL | D6_15 | HG002complexvar | het | 93.0974 | 94.0064 | 92.2058 | 56.4938 | 2933 | 187 | 2993 | 253 | 209 | 82.6087 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 85.9341 | 80.4598 | 92.2078 | 71.1610 | 70 | 17 | 71 | 6 | 5 | 83.3333 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 84.0237 | 77.1739 | 92.2078 | 54.4379 | 71 | 21 | 71 | 6 | 4 | 66.6667 | |
| cchapple-custom | INDEL | I6_15 | map_l100_m2_e1 | het | 91.1744 | 90.1639 | 92.2078 | 88.8081 | 55 | 6 | 71 | 6 | 1 | 16.6667 | |
| jpowers-varprowl | INDEL | * | map_l250_m0_e0 | * | 91.6129 | 91.0256 | 92.2078 | 98.2130 | 71 | 7 | 71 | 6 | 3 | 50.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 24.8195 | 14.3396 | 92.2078 | 60.3093 | 76 | 454 | 71 | 6 | 5 | 83.3333 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.2033 | 94.2180 | 92.2102 | 45.7942 | 2982 | 183 | 2983 | 252 | 219 | 86.9048 | |
| ciseli-custom | SNP | tv | segdup | * | 95.0488 | 98.0661 | 92.2117 | 92.0351 | 8367 | 165 | 8347 | 705 | 88 | 12.4823 | |
| mlin-fermikit | INDEL | * | map_l100_m2_e1 | het | 74.8844 | 63.0388 | 92.2118 | 79.9750 | 1477 | 866 | 1480 | 125 | 73 | 58.4000 | |
| mlin-fermikit | INDEL | D6_15 | HG002complexvar | * | 90.8139 | 89.4568 | 92.2128 | 58.0463 | 4743 | 559 | 4784 | 404 | 381 | 94.3069 | |
| ckim-vqsr | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5725 | 99.1852 | 92.2138 | 66.1587 | 2191 | 18 | 2191 | 185 | 182 | 98.3784 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.6249 | 79.9127 | 92.2166 | 76.3031 | 549 | 138 | 545 | 46 | 28 | 60.8696 | |
| gduggal-snapvard | INDEL | I1_5 | segdup | * | 91.3324 | 90.4627 | 92.2190 | 95.0889 | 958 | 101 | 960 | 81 | 68 | 83.9506 | |
| jpowers-varprowl | INDEL | * | map_l150_m0_e0 | het | 93.0233 | 93.8416 | 92.2190 | 93.9442 | 320 | 21 | 320 | 27 | 18 | 66.6667 | |
| gduggal-snapplat | INDEL | I1_5 | * | homalt | 83.6103 | 76.4695 | 92.2220 | 62.8436 | 46209 | 14219 | 46704 | 3939 | 356 | 9.0378 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.6666 | 99.3783 | 92.2222 | 67.1222 | 2238 | 14 | 2241 | 189 | 11 | 5.8201 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 84.1131 | 77.3148 | 92.2222 | 50.6849 | 167 | 49 | 166 | 14 | 14 | 100.0000 | |
| cchapple-custom | INDEL | C6_15 | * | * | 95.9554 | 100.0000 | 92.2252 | 93.7957 | 7 | 0 | 344 | 29 | 11 | 37.9310 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 75.0708 | 63.2962 | 92.2274 | 85.6453 | 795 | 461 | 795 | 67 | 11 | 16.4179 | |
| cchapple-custom | INDEL | D1_5 | map_l250_m2_e1 | * | 94.6948 | 97.2973 | 92.2280 | 94.7767 | 180 | 5 | 178 | 15 | 1 | 6.6667 | |
| qzeng-custom | SNP | * | map_l250_m1_e0 | * | 74.6091 | 62.6419 | 92.2286 | 95.4856 | 4524 | 2698 | 4486 | 378 | 314 | 83.0688 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 22.0793 | 12.5407 | 92.2309 | 57.4591 | 1194 | 8327 | 1294 | 109 | 93 | 85.3211 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 95.4784 | 98.9605 | 92.2330 | 63.8596 | 476 | 5 | 475 | 40 | 9 | 22.5000 | |
| gduggal-bwafb | INDEL | D16_PLUS | map_siren | * | 77.2358 | 66.4336 | 92.2330 | 84.8529 | 95 | 48 | 95 | 8 | 7 | 87.5000 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 93.4478 | 94.6950 | 92.2330 | 77.5820 | 2981 | 167 | 2945 | 248 | 101 | 40.7258 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | het | 93.9535 | 95.7346 | 92.2374 | 96.6702 | 202 | 9 | 202 | 17 | 2 | 11.7647 | |
| gduggal-snapplat | SNP | ti | map_l150_m0_e0 | het | 90.2196 | 88.2872 | 92.2384 | 90.0002 | 4500 | 597 | 4504 | 379 | 218 | 57.5198 | |
| jlack-gatk | INDEL | D1_5 | map_siren | het | 95.7195 | 99.4730 | 92.2389 | 84.5589 | 2265 | 12 | 2270 | 191 | 11 | 5.7592 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 95.2850 | 98.5379 | 92.2401 | 87.2851 | 1887 | 28 | 1890 | 159 | 11 | 6.9182 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 69.7828 | 56.1178 | 92.2449 | 67.9389 | 1353 | 1058 | 1356 | 114 | 34 | 29.8246 | |
| jpowers-varprowl | INDEL | I1_5 | segdup | * | 91.1537 | 90.0850 | 92.2481 | 94.2204 | 954 | 105 | 952 | 80 | 67 | 83.7500 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l125_m2_e1 | * | 91.4293 | 90.6250 | 92.2481 | 89.5037 | 116 | 12 | 119 | 10 | 5 | 50.0000 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5706 | 99.1399 | 92.2494 | 66.0177 | 2190 | 19 | 2190 | 184 | 181 | 98.3696 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.8184 | 97.5347 | 92.2494 | 57.4247 | 633 | 16 | 1095 | 92 | 89 | 96.7391 | |
| jlack-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 89.6882 | 87.2608 | 92.2546 | 52.5070 | 1870 | 273 | 1870 | 157 | 144 | 91.7197 | |
| gduggal-snapplat | SNP | tv | map_l150_m1_e0 | het | 91.7565 | 91.2612 | 92.2573 | 87.5714 | 6339 | 607 | 6339 | 532 | 282 | 53.0075 | |
| ckim-isaac | INDEL | I6_15 | HG002complexvar | homalt | 79.2387 | 69.4399 | 92.2574 | 47.0554 | 843 | 371 | 846 | 71 | 37 | 52.1127 | |