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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
38201-38250 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D6_15 | map_l100_m2_e0 | het | 91.8288 | 90.0763 | 93.6508 | 91.9796 | 118 | 13 | 118 | 8 | 2 | 25.0000 | |
| gduggal-snapfb | INDEL | * | map_l125_m0_e0 | * | 92.6762 | 91.7234 | 93.6490 | 88.7210 | 809 | 73 | 811 | 55 | 16 | 29.0909 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.0055 | 90.4209 | 93.6466 | 50.9768 | 2492 | 264 | 2491 | 169 | 156 | 92.3077 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 69.8249 | 55.6650 | 93.6464 | 87.2714 | 339 | 270 | 339 | 23 | 17 | 73.9130 | |
| gduggal-bwafb | INDEL | I16_PLUS | * | hetalt | 59.7317 | 43.8513 | 93.6441 | 57.0909 | 920 | 1178 | 221 | 15 | 15 | 100.0000 | |
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | * | 95.4295 | 97.2861 | 93.6425 | 90.9971 | 7026 | 196 | 7026 | 477 | 84 | 17.6101 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.2770 | 99.0654 | 93.6413 | 86.2049 | 1802 | 17 | 1561 | 106 | 70 | 66.0377 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.2770 | 99.0654 | 93.6413 | 86.2049 | 1802 | 17 | 1561 | 106 | 70 | 66.0377 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 92.8446 | 92.0624 | 93.6403 | 70.3210 | 86952 | 7497 | 86813 | 5896 | 5729 | 97.1676 | |
| jlack-gatk | SNP | * | map_l125_m2_e0 | * | 96.1886 | 98.8828 | 93.6372 | 80.3034 | 46201 | 522 | 46195 | 3139 | 239 | 7.6139 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 92.5656 | 91.5183 | 93.6371 | 69.0667 | 4575 | 424 | 4562 | 310 | 290 | 93.5484 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 92.5656 | 91.5183 | 93.6371 | 69.0667 | 4575 | 424 | 4562 | 310 | 290 | 93.5484 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.5655 | 87.6892 | 93.6369 | 59.5069 | 3419 | 480 | 3414 | 232 | 224 | 96.5517 | |
| cchapple-custom | INDEL | I6_15 | map_l100_m2_e1 | * | 92.9336 | 92.2414 | 93.6364 | 88.3103 | 107 | 9 | 103 | 7 | 2 | 28.5714 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.6571 | 97.7672 | 93.6362 | 64.2950 | 4729 | 108 | 4370 | 297 | 64 | 21.5488 | |
| asubramanian-gatk | INDEL | * | HG002compoundhet | * | 93.4362 | 93.2377 | 93.6356 | 65.8907 | 27934 | 2026 | 27836 | 1892 | 1575 | 83.2452 | |
| qzeng-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.6640 | 97.7823 | 93.6355 | 79.8288 | 970 | 22 | 971 | 66 | 9 | 13.6364 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 63.7102 | 48.2815 | 93.6306 | 83.3598 | 295 | 316 | 294 | 20 | 10 | 50.0000 | |
| eyeh-varpipe | INDEL | I6_15 | HG002complexvar | hetalt | 50.4268 | 34.5053 | 93.6293 | 59.7826 | 422 | 801 | 485 | 33 | 33 | 100.0000 | |
| gduggal-bwavard | INDEL | I1_5 | segdup | * | 92.2615 | 90.9348 | 93.6275 | 94.8607 | 963 | 96 | 955 | 65 | 56 | 86.1538 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e0 | * | 96.1316 | 98.7752 | 93.6258 | 90.6812 | 1129 | 14 | 1131 | 77 | 6 | 7.7922 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.3178 | 93.0147 | 93.6229 | 58.8750 | 1012 | 76 | 1013 | 69 | 50 | 72.4638 | |
| gduggal-snapfb | INDEL | I1_5 | map_siren | het | 94.9188 | 96.2522 | 93.6219 | 81.5720 | 1618 | 63 | 1644 | 112 | 17 | 15.1786 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3676 | 91.1466 | 93.6218 | 50.4528 | 2512 | 244 | 2510 | 171 | 166 | 97.0760 | |
| ndellapenna-hhga | INDEL | D16_PLUS | HG002complexvar | het | 89.4513 | 85.6369 | 93.6214 | 62.1643 | 948 | 159 | 910 | 62 | 44 | 70.9677 | |
| gduggal-snapplat | SNP | * | map_l250_m1_e0 | * | 87.2444 | 81.6810 | 93.6211 | 93.6506 | 5899 | 1323 | 5900 | 402 | 193 | 48.0100 | |
| eyeh-varpipe | INDEL | D16_PLUS | * | hetalt | 28.3581 | 16.7098 | 93.6210 | 67.5396 | 323 | 1610 | 499 | 34 | 33 | 97.0588 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 0.0000 | 0.0000 | 93.6170 | 95.2929 | 0 | 0 | 88 | 6 | 3 | 50.0000 | |
| eyeh-varpipe | INDEL | C1_5 | map_l125_m1_e0 | * | 0.0000 | 0.0000 | 93.6170 | 95.7619 | 0 | 0 | 44 | 3 | 1 | 33.3333 | |
| egarrison-hhga | INDEL | I1_5 | map_l250_m2_e0 | homalt | 95.6522 | 97.7778 | 93.6170 | 95.4457 | 44 | 1 | 44 | 3 | 1 | 33.3333 | |
| rpoplin-dv42 | INDEL | I6_15 | map_l125_m1_e0 | * | 88.0000 | 83.0189 | 93.6170 | 89.3905 | 44 | 9 | 44 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | INDEL | I6_15 | map_l125_m2_e0 | * | 88.0000 | 83.0189 | 93.6170 | 90.5242 | 44 | 9 | 44 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | INDEL | I6_15 | map_l125_m2_e1 | * | 88.0000 | 83.0189 | 93.6170 | 90.8382 | 44 | 9 | 44 | 3 | 2 | 66.6667 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m2_e1 | het | 95.6522 | 97.7778 | 93.6170 | 90.0774 | 132 | 3 | 132 | 9 | 2 | 22.2222 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 41.7062 | 26.8293 | 93.6170 | 94.3914 | 44 | 120 | 44 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | map_l125_m0_e0 | * | 93.6170 | 93.6170 | 93.6170 | 93.6913 | 44 | 3 | 44 | 3 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l250_m2_e0 | homalt | 95.6522 | 97.7778 | 93.6170 | 94.3305 | 44 | 1 | 44 | 3 | 3 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | segdup | het | 96.7033 | 100.0000 | 93.6170 | 95.2090 | 37 | 0 | 44 | 3 | 3 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l250_m0_e0 | * | 94.6237 | 95.6522 | 93.6170 | 97.1567 | 44 | 2 | 44 | 3 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m1_e0 | * | 94.5107 | 95.4217 | 93.6170 | 89.0315 | 792 | 38 | 792 | 54 | 19 | 35.1852 | |
| gduggal-snapfb | INDEL | I1_5 | map_l250_m2_e0 | homalt | 95.6522 | 97.7778 | 93.6170 | 97.1095 | 44 | 1 | 44 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m1_e0 | homalt | 96.7033 | 100.0000 | 93.6170 | 94.0806 | 44 | 0 | 44 | 3 | 2 | 66.6667 | |
| jlack-gatk | SNP | ti | tech_badpromoters | het | 96.7033 | 100.0000 | 93.6170 | 48.9130 | 44 | 0 | 44 | 3 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.2500 | 99.0354 | 93.6170 | 69.7610 | 308 | 3 | 308 | 21 | 20 | 95.2381 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 89.8442 | 86.3636 | 93.6170 | 94.7486 | 57 | 9 | 44 | 3 | 2 | 66.6667 | |
| gduggal-snapfb | INDEL | * | * | het | 92.8434 | 92.0858 | 93.6136 | 55.1298 | 178769 | 15364 | 200114 | 13652 | 5023 | 36.7931 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 94.4612 | 95.3252 | 93.6128 | 55.7029 | 469 | 23 | 469 | 32 | 25 | 78.1250 | |
| gduggal-snapplat | SNP | ti | map_l150_m2_e1 | het | 93.1452 | 92.6854 | 93.6096 | 87.2522 | 12063 | 952 | 12085 | 825 | 463 | 56.1212 | |
| bgallagher-sentieon | INDEL | * | map_l250_m2_e1 | het | 95.3488 | 97.1564 | 93.6073 | 96.5517 | 205 | 6 | 205 | 14 | 2 | 14.2857 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9210 | 92.2462 | 93.6058 | 72.7642 | 1963 | 165 | 1947 | 133 | 117 | 87.9699 | |