PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
77401-77450 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | D6_15 | * | homalt | 98.4421 | 99.8893 | 97.0362 | 55.3606 | 6319 | 7 | 6319 | 193 | 190 | 98.4456 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.4618 | 99.9203 | 95.1213 | 59.6779 | 3763 | 3 | 3763 | 193 | 190 | 98.4456 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4618 | 99.9203 | 95.1213 | 59.6779 | 3763 | 3 | 3763 | 193 | 190 | 98.4456 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 66.7240 | 96.5130 | 50.9868 | 39.6443 | 9189 | 332 | 12943 | 12442 | 12249 | 98.4488 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.1577 | 96.3875 | 81.2227 | 77.7237 | 587 | 22 | 558 | 129 | 127 | 98.4496 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.6444 | 99.7860 | 95.5928 | 54.4932 | 2798 | 6 | 2798 | 129 | 127 | 98.4496 | |
| raldana-dualsentieon | INDEL | I6_15 | * | homalt | 97.3324 | 99.7115 | 95.0642 | 52.3622 | 6221 | 18 | 6221 | 323 | 318 | 98.4520 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.2713 | 98.9588 | 91.8487 | 64.7877 | 2186 | 23 | 2186 | 194 | 191 | 98.4536 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 41.4591 | 33.4290 | 54.5667 | 44.1830 | 233 | 464 | 233 | 194 | 191 | 98.4536 | |
| jpowers-varprowl | INDEL | * | HG002compoundhet | * | 14.0649 | 13.8284 | 14.3095 | 60.1145 | 4143 | 25817 | 4126 | 24708 | 24326 | 98.4539 | |
| jpowers-varprowl | INDEL | D16_PLUS | * | het | 70.8402 | 90.6933 | 58.1179 | 67.6572 | 2865 | 294 | 2878 | 2074 | 2042 | 98.4571 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.1282 | 96.9069 | 99.3807 | 45.7062 | 10151 | 324 | 10430 | 65 | 64 | 98.4615 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.0808 | 92.8872 | 99.5018 | 43.2116 | 12785 | 979 | 12981 | 65 | 64 | 98.4615 | |
| bgallagher-sentieon | INDEL | * | * | hetalt | 95.9976 | 92.5387 | 99.7251 | 56.9311 | 23354 | 1883 | 23582 | 65 | 64 | 98.4615 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 75.3115 | 93.4534 | 63.0682 | 57.8947 | 571 | 40 | 666 | 390 | 384 | 98.4615 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 40.4915 | 37.7049 | 43.7229 | 36.0111 | 23 | 38 | 101 | 130 | 128 | 98.4615 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 81.8133 | 75.2350 | 89.6520 | 58.5736 | 3761 | 1238 | 3942 | 455 | 448 | 98.4615 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 81.8133 | 75.2350 | 89.6520 | 58.5736 | 3761 | 1238 | 3942 | 455 | 448 | 98.4615 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.5828 | 97.0678 | 76.5280 | 56.7627 | 3178 | 96 | 3606 | 1106 | 1089 | 98.4629 | |
| jmaeng-gatk | INDEL | * | HG002compoundhet | het | 92.6044 | 97.8749 | 87.8724 | 79.5506 | 4007 | 87 | 3775 | 521 | 513 | 98.4645 | |
| gduggal-bwavard | INDEL | I1_5 | HG002compoundhet | het | 20.0258 | 84.8235 | 11.3531 | 68.3156 | 721 | 129 | 709 | 5536 | 5451 | 98.4646 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 47.5210 | 44.6987 | 50.7237 | 69.1756 | 801 | 991 | 806 | 783 | 771 | 98.4674 | |
| ckim-dragen | INDEL | * | * | homalt | 99.2636 | 99.8234 | 98.7101 | 59.5235 | 124951 | 221 | 124887 | 1632 | 1607 | 98.4681 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 79.2227 | 71.1825 | 89.3103 | 43.3419 | 4918 | 1991 | 4921 | 589 | 580 | 98.4720 | |
| qzeng-custom | SNP | * | map_l100_m1_e0 | homalt | 87.6866 | 78.4579 | 99.3758 | 57.2534 | 21186 | 5817 | 20855 | 131 | 129 | 98.4733 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.7633 | 99.8064 | 97.7418 | 57.2891 | 5670 | 11 | 5670 | 131 | 129 | 98.4733 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 82.6140 | 71.5225 | 97.7770 | 46.1187 | 5764 | 2295 | 5762 | 131 | 129 | 98.4733 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 82.6140 | 71.5225 | 97.7770 | 46.1187 | 5764 | 2295 | 5762 | 131 | 129 | 98.4733 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 70.9466 | 66.7041 | 75.7654 | 53.5142 | 10704 | 5343 | 10864 | 3475 | 3422 | 98.4748 | |
| gduggal-snapfb | INDEL | D6_15 | * | * | 82.6720 | 75.4063 | 91.4873 | 42.8991 | 19675 | 6417 | 20441 | 1902 | 1873 | 98.4753 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.5664 | 97.8336 | 91.5103 | 35.6834 | 7090 | 157 | 7071 | 656 | 646 | 98.4756 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 84.1619 | 82.2267 | 86.1905 | 45.3886 | 7777 | 1681 | 7783 | 1247 | 1228 | 98.4763 | |
| rpoplin-dv42 | INDEL | * | HG002compoundhet | * | 93.3591 | 92.7336 | 93.9930 | 68.4001 | 27783 | 2177 | 27758 | 1774 | 1747 | 98.4780 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.3360 | 76.6141 | 88.9816 | 53.1299 | 534 | 163 | 533 | 66 | 65 | 98.4848 | |
| ltrigg-rtg2 | INDEL | D1_5 | * | hetalt | 97.9310 | 96.5544 | 99.3475 | 70.1886 | 9892 | 353 | 10049 | 66 | 65 | 98.4848 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 57.8545 | 55.6351 | 60.2584 | 48.5091 | 20358 | 16234 | 20333 | 13410 | 13207 | 98.4862 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 64.3730 | 59.4553 | 70.1776 | 54.1149 | 2336 | 1593 | 2332 | 991 | 976 | 98.4864 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 78.5574 | 75.3845 | 82.0092 | 73.4719 | 48571 | 15860 | 48524 | 10645 | 10484 | 98.4876 | |
| gduggal-bwaplat | INDEL | D6_15 | * | hetalt | 82.8017 | 71.8008 | 97.7833 | 50.4460 | 5869 | 2305 | 5867 | 133 | 131 | 98.4962 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8473 | 99.8104 | 95.9599 | 54.4297 | 3159 | 6 | 3159 | 133 | 131 | 98.4962 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6327 | 96.9169 | 98.3591 | 48.8223 | 19961 | 635 | 19961 | 333 | 328 | 98.4985 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 53.6324 | 61.8056 | 47.3684 | 65.3285 | 178 | 110 | 180 | 200 | 197 | 98.5000 | |
| jmaeng-gatk | INDEL | * | * | hetalt | 95.2835 | 91.2311 | 99.7126 | 56.1602 | 23024 | 2213 | 23247 | 67 | 66 | 98.5075 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0483 | 92.8307 | 99.4969 | 46.1918 | 13026 | 1006 | 13250 | 67 | 66 | 98.5075 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.1817 | 76.4706 | 88.8147 | 52.8718 | 533 | 164 | 532 | 67 | 66 | 98.5075 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 89.1338 | 86.8027 | 91.5935 | 49.4610 | 638 | 97 | 730 | 67 | 66 | 98.5075 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4096 | 99.6175 | 99.2025 | 47.1436 | 8334 | 32 | 8334 | 67 | 66 | 98.5075 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.5440 | 77.0445 | 88.8889 | 53.2920 | 537 | 160 | 536 | 67 | 66 | 98.5075 | |
| dgrover-gatk | INDEL | I1_5 | HG002compoundhet | het | 95.2481 | 98.5882 | 92.1269 | 86.8653 | 838 | 12 | 784 | 67 | 66 | 98.5075 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.1817 | 76.4706 | 88.8147 | 52.8718 | 533 | 164 | 532 | 67 | 66 | 98.5075 | |