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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74801-74850 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.2452 | 99.2509 | 99.2395 | 60.2118 | 265 | 2 | 261 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2453 | 98.8722 | 99.6212 | 80.9111 | 263 | 3 | 263 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | HG002complexvar | * | 99.2454 | 98.7574 | 99.7382 | 56.8994 | 75982 | 956 | 75827 | 199 | 151 | 75.8794 | |
| hfeng-pmm1 | SNP | ti | map_l125_m2_e1 | het | 99.2454 | 98.8841 | 99.6094 | 71.5149 | 18874 | 213 | 18870 | 74 | 18 | 24.3243 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e0 | * | 99.2454 | 99.3086 | 99.1822 | 74.7468 | 16375 | 114 | 16373 | 135 | 27 | 20.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2454 | 98.9362 | 99.5565 | 60.8846 | 465 | 5 | 449 | 2 | 0 | 0.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.2455 | 99.2320 | 99.2591 | 40.7060 | 3876 | 30 | 3885 | 29 | 10 | 34.4828 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2458 | 98.7161 | 99.7811 | 57.1497 | 19607 | 255 | 19600 | 43 | 25 | 58.1395 | |
| jli-custom | SNP | tv | map_l125_m1_e0 | * | 99.2462 | 99.0572 | 99.4359 | 66.9313 | 15865 | 151 | 15864 | 90 | 26 | 28.8889 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2465 | 99.7835 | 98.7152 | 64.0769 | 461 | 1 | 461 | 6 | 6 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m1_e0 | homalt | 99.2467 | 99.1803 | 99.3132 | 84.0316 | 726 | 6 | 723 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2467 | 99.6334 | 98.8630 | 62.3274 | 10871 | 40 | 10869 | 125 | 24 | 19.2000 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e0 | homalt | 99.2469 | 99.2863 | 99.2076 | 82.1525 | 1252 | 9 | 1252 | 10 | 4 | 40.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.2470 | 98.6527 | 99.8485 | 51.0567 | 1318 | 18 | 1318 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | * | map_l150_m2_e0 | * | 99.2475 | 99.3878 | 99.1076 | 77.7218 | 31657 | 195 | 31651 | 285 | 34 | 11.9298 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2477 | 99.2381 | 99.2572 | 75.1119 | 5080 | 39 | 5078 | 38 | 20 | 52.6316 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e1 | * | 99.2480 | 98.6784 | 99.8242 | 55.9018 | 48831 | 654 | 48833 | 86 | 19 | 22.0930 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l150_m0_e0 | homalt | 99.2481 | 98.5075 | 100.0000 | 83.5476 | 66 | 1 | 64 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I1_5 | map_l150_m2_e0 | homalt | 99.2481 | 99.0050 | 99.4924 | 85.2434 | 199 | 2 | 196 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2481 | 98.5075 | 100.0000 | 78.1553 | 462 | 7 | 450 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I1_5 | map_l150_m2_e0 | homalt | 99.2481 | 100.0000 | 98.5075 | 88.2181 | 201 | 0 | 198 | 3 | 1 | 33.3333 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l150_m1_e0 | homalt | 99.2481 | 100.0000 | 98.5075 | 86.5010 | 198 | 0 | 198 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | I1_5 | map_l150_m1_e0 | homalt | 99.2481 | 100.0000 | 98.5075 | 86.7676 | 198 | 0 | 198 | 3 | 2 | 66.6667 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.2481 | 100.0000 | 98.5075 | 67.1569 | 68 | 0 | 66 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2481 | 99.2481 | 99.2481 | 82.9814 | 264 | 2 | 264 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2481 | 98.5075 | 100.0000 | 83.7381 | 462 | 7 | 462 | 0 | 0 | ||
| jli-custom | INDEL | I1_5 | map_l150_m1_e0 | homalt | 99.2481 | 100.0000 | 98.5075 | 85.5603 | 198 | 0 | 198 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m1_e0 | homalt | 99.2481 | 100.0000 | 98.5075 | 85.7548 | 198 | 0 | 198 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l150_m1_e0 | homalt | 99.2481 | 100.0000 | 98.5075 | 85.6017 | 198 | 0 | 198 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l150_m1_e0 | homalt | 99.2481 | 100.0000 | 98.5075 | 84.9099 | 198 | 0 | 198 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | * | map_l125_m1_e0 | homalt | 99.2481 | 99.1803 | 99.3160 | 86.5054 | 726 | 6 | 726 | 5 | 3 | 60.0000 | |
| rpoplin-dv42 | SNP | tv | map_l150_m1_e0 | homalt | 99.2485 | 98.7329 | 99.7695 | 71.6659 | 3896 | 50 | 3896 | 9 | 9 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002complexvar | * | 99.2488 | 98.7471 | 99.7557 | 52.7857 | 32944 | 418 | 32259 | 79 | 48 | 60.7595 | |
| jlack-gatk | SNP | ti | map_l125_m2_e1 | homalt | 99.2489 | 98.6036 | 99.9027 | 66.4043 | 11298 | 160 | 11298 | 11 | 9 | 81.8182 | |
| ckim-dragen | INDEL | D6_15 | * | het | 99.2490 | 99.4651 | 99.0338 | 63.3339 | 11530 | 62 | 11480 | 112 | 67 | 59.8214 | |
| ndellapenna-hhga | SNP | ti | map_l250_m1_e0 | homalt | 99.2491 | 98.6932 | 99.8112 | 85.5873 | 1586 | 21 | 1586 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | map_l125_m1_e0 | homalt | 99.2491 | 99.3169 | 99.1814 | 84.1205 | 727 | 5 | 727 | 6 | 3 | 50.0000 | |
| jli-custom | INDEL | * | map_l125_m1_e0 | homalt | 99.2491 | 99.3169 | 99.1814 | 84.5684 | 727 | 5 | 727 | 6 | 4 | 66.6667 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.2492 | 99.3985 | 99.1004 | 39.5833 | 1322 | 8 | 1322 | 12 | 10 | 83.3333 | |
| rpoplin-dv42 | INDEL | I1_5 | * | * | 99.2493 | 99.0230 | 99.4767 | 57.6844 | 149192 | 1472 | 149236 | 785 | 730 | 92.9936 | |
| gduggal-snapvard | SNP | * | func_cds | het | 99.2494 | 99.0323 | 99.4675 | 33.3113 | 11053 | 108 | 11020 | 59 | 21 | 35.5932 | |
| gduggal-snapfb | SNP | * | * | * | 99.2501 | 99.8026 | 98.7037 | 23.6262 | 3048604 | 6030 | 3049548 | 40049 | 2047 | 5.1112 | |
| bgallagher-sentieon | INDEL | * | map_l125_m1_e0 | homalt | 99.2502 | 99.4536 | 99.0476 | 85.8491 | 728 | 4 | 728 | 7 | 4 | 57.1429 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2504 | 99.2513 | 99.2495 | 62.6333 | 15642 | 118 | 15472 | 117 | 78 | 66.6667 | |
| hfeng-pmm1 | SNP | * | map_l125_m1_e0 | het | 99.2507 | 98.9117 | 99.5921 | 70.2654 | 28083 | 309 | 28077 | 115 | 29 | 25.2174 | |
| astatham-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2511 | 98.5968 | 99.9141 | 62.3697 | 34922 | 497 | 34912 | 30 | 13 | 43.3333 | |
| astatham-gatk | INDEL | I6_15 | HG002complexvar | het | 99.2512 | 98.7261 | 99.7819 | 59.6303 | 2325 | 30 | 2288 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | SNP | tv | map_l250_m2_e0 | homalt | 99.2513 | 99.0395 | 99.4641 | 86.2166 | 928 | 9 | 928 | 5 | 4 | 80.0000 | |
| jli-custom | INDEL | I1_5 | map_l100_m1_e0 | * | 99.2513 | 98.9544 | 99.5499 | 81.4397 | 1325 | 14 | 1327 | 6 | 3 | 50.0000 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.2514 | 99.9113 | 98.6002 | 57.2710 | 1127 | 1 | 1127 | 16 | 10 | 62.5000 | |