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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
34901-34950 / 86044 show all | |||||||||||||||
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 29.4976 | 75.5245 | 18.3280 | 86.4488 | 108 | 35 | 114 | 508 | 25 | 4.9213 | |
| gduggal-snapplat | INDEL | I1_5 | map_l125_m2_e0 | het | 82.6633 | 79.0744 | 86.5934 | 94.8547 | 393 | 104 | 394 | 61 | 3 | 4.9180 | |
| hfeng-pmm2 | SNP | tv | map_l150_m0_e0 | het | 98.2477 | 98.6282 | 97.8701 | 83.2230 | 2804 | 39 | 2803 | 61 | 3 | 4.9180 | |
| ckim-vqsr | SNP | * | * | het | 99.4736 | 99.0611 | 99.8894 | 26.9578 | 1855996 | 17591 | 1855876 | 2054 | 101 | 4.9172 | |
| ckim-dragen | SNP | * | * | het | 99.7355 | 99.9519 | 99.5199 | 24.5349 | 1872686 | 901 | 1873038 | 9035 | 444 | 4.9142 | |
| gduggal-bwavard | SNP | * | map_l100_m0_e0 | het | 93.1046 | 97.6656 | 88.9506 | 81.2913 | 20710 | 495 | 20488 | 2545 | 125 | 4.9116 | |
| jlack-gatk | INDEL | * | map_l100_m0_e0 | het | 91.5391 | 97.8452 | 85.9966 | 90.8195 | 999 | 22 | 1001 | 163 | 8 | 4.9080 | |
| gduggal-snapvard | SNP | * | map_l250_m1_e0 | * | 85.6069 | 95.3199 | 77.6904 | 91.0746 | 6884 | 338 | 6815 | 1957 | 96 | 4.9055 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 90.5999 | 98.1413 | 84.1348 | 64.8517 | 2904 | 55 | 2922 | 551 | 27 | 4.9002 | |
| hfeng-pmm3 | SNP | tv | * | het | 99.9161 | 99.8738 | 99.9586 | 21.3235 | 590949 | 747 | 590875 | 245 | 12 | 4.8980 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8331 | 99.2999 | 96.4089 | 78.7770 | 28511 | 201 | 28511 | 1062 | 52 | 4.8964 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8331 | 99.2999 | 96.4089 | 78.7770 | 28511 | 201 | 28511 | 1062 | 52 | 4.8964 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.5242 | 99.6649 | 93.5754 | 71.7749 | 2677 | 9 | 2680 | 184 | 9 | 4.8913 | |
| gduggal-snapplat | INDEL | * | map_l100_m1_e0 | homalt | 84.8014 | 75.8761 | 96.1064 | 87.1554 | 931 | 296 | 1012 | 41 | 2 | 4.8781 | |
| gduggal-snapplat | INDEL | * | map_l100_m2_e0 | homalt | 84.9002 | 75.9715 | 96.2072 | 87.8170 | 958 | 303 | 1040 | 41 | 2 | 4.8781 | |
| gduggal-snapplat | INDEL | * | map_l100_m2_e1 | homalt | 84.9123 | 75.9563 | 96.2625 | 87.8918 | 973 | 308 | 1056 | 41 | 2 | 4.8781 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.0021 | 98.8951 | 99.1093 | 37.8896 | 4565 | 51 | 4562 | 41 | 2 | 4.8781 | |
| asubramanian-gatk | INDEL | * | map_l150_m0_e0 | het | 88.4846 | 88.8563 | 88.1159 | 94.8291 | 303 | 38 | 304 | 41 | 2 | 4.8781 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 94.0601 | 98.8051 | 89.7500 | 89.3096 | 1075 | 13 | 1077 | 123 | 6 | 4.8781 | |
| ckim-gatk | INDEL | * | map_l250_m1_e0 | het | 88.9423 | 97.3684 | 81.8584 | 97.5127 | 185 | 5 | 185 | 41 | 2 | 4.8781 | |
| ckim-gatk | INDEL | * | map_l250_m2_e0 | het | 89.9123 | 97.6190 | 83.3333 | 97.6273 | 205 | 5 | 205 | 41 | 2 | 4.8781 | |
| ckim-gatk | INDEL | * | map_l250_m2_e1 | het | 89.9563 | 97.6303 | 83.4008 | 97.6831 | 206 | 5 | 206 | 41 | 2 | 4.8781 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 51.6619 | 87.8340 | 36.5923 | 82.4916 | 1249 | 173 | 1280 | 2218 | 108 | 4.8693 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.8792 | 96.9561 | 94.8260 | 86.0126 | 4109 | 129 | 4142 | 226 | 11 | 4.8673 | |
| gduggal-bwavard | SNP | tv | map_l125_m2_e1 | het | 93.2098 | 98.3701 | 88.5639 | 83.4663 | 10381 | 172 | 10354 | 1337 | 65 | 4.8616 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 14.2857 | 100.0000 | 7.6923 | 80.7169 | 12 | 0 | 12 | 144 | 7 | 4.8611 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 14.2857 | 100.0000 | 7.6923 | 80.7169 | 12 | 0 | 12 | 144 | 7 | 4.8611 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 88.4231 | 97.9687 | 80.5725 | 52.0129 | 10514 | 218 | 10584 | 2552 | 124 | 4.8589 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.7237 | 99.6377 | 93.9753 | 40.8977 | 7425 | 27 | 7066 | 453 | 22 | 4.8565 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m0_e0 | het | 91.3204 | 98.6464 | 85.0073 | 89.4535 | 583 | 8 | 584 | 103 | 5 | 4.8544 | |
| gduggal-snapplat | INDEL | I1_5 | map_l125_m2_e1 | het | 82.6084 | 78.9370 | 86.6379 | 94.9067 | 401 | 107 | 402 | 62 | 3 | 4.8387 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6955 | 99.6275 | 95.8371 | 67.9253 | 4279 | 16 | 4282 | 186 | 9 | 4.8387 | |
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 90.9891 | 97.2501 | 85.4856 | 71.8215 | 34445 | 974 | 34119 | 5793 | 280 | 4.8334 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9413 | 99.8121 | 98.0856 | 65.0500 | 27626 | 52 | 27616 | 539 | 26 | 4.8238 | |
| ltrigg-rtg2 | SNP | * | map_siren | het | 99.2163 | 98.7812 | 99.6552 | 46.0328 | 89881 | 1109 | 89887 | 311 | 15 | 4.8232 | |
| jlack-gatk | SNP | tv | map_siren | het | 95.9855 | 99.5106 | 92.7015 | 72.5215 | 28469 | 140 | 28464 | 2241 | 108 | 4.8193 | |
| ckim-vqsr | SNP | ti | segdup | het | 98.9319 | 98.5619 | 99.3047 | 94.5420 | 11857 | 173 | 11855 | 83 | 4 | 4.8193 | |
| jpowers-varprowl | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.9005 | 98.1874 | 97.6153 | 68.2457 | 34777 | 642 | 34917 | 853 | 41 | 4.8066 | |
| gduggal-bwavard | SNP | tv | map_l125_m2_e0 | het | 93.1678 | 98.3624 | 88.4944 | 83.4152 | 10271 | 171 | 10245 | 1332 | 64 | 4.8048 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 78.3548 | 95.3881 | 66.4830 | 78.8960 | 13899 | 672 | 13998 | 7057 | 339 | 4.8037 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 78.3548 | 95.3881 | 66.4830 | 78.8960 | 13899 | 672 | 13998 | 7057 | 339 | 4.8037 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m2_e0 | * | 94.2098 | 98.7752 | 90.0478 | 89.8856 | 1129 | 14 | 1131 | 125 | 6 | 4.8000 | |
| asubramanian-gatk | SNP | * | * | * | 98.9379 | 97.9985 | 99.8954 | 21.0150 | 2993480 | 61139 | 2993343 | 3133 | 150 | 4.7877 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.2622 | 98.0574 | 88.9141 | 86.8298 | 2322 | 46 | 2350 | 293 | 14 | 4.7782 | |
| asubramanian-gatk | SNP | * | * | hetalt | 94.8157 | 94.4891 | 95.1445 | 47.6709 | 823 | 48 | 823 | 42 | 2 | 4.7619 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.8441 | 99.5400 | 98.1579 | 64.3471 | 2164 | 10 | 2238 | 42 | 2 | 4.7619 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.2195 | 99.3511 | 97.1134 | 65.4886 | 1378 | 9 | 1413 | 42 | 2 | 4.7619 | |
| mlin-fermikit | SNP | ti | map_l250_m2_e0 | het | 44.6395 | 28.9183 | 97.8170 | 82.5282 | 941 | 2313 | 941 | 21 | 1 | 4.7619 | |
| mlin-fermikit | SNP | ti | map_l250_m2_e1 | het | 44.9323 | 29.1604 | 97.8637 | 82.7453 | 962 | 2337 | 962 | 21 | 1 | 4.7619 | |
| qzeng-custom | INDEL | I6_15 | map_siren | * | 71.0638 | 81.6393 | 62.9139 | 77.5520 | 249 | 56 | 285 | 168 | 8 | 4.7619 | |