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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
201-250 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 57.8545 | 55.6351 | 60.2584 | 48.5091 | 20358 | 16234 | 20333 | 13410 | 13207 | 98.4862 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 76.6853 | 89.2624 | 67.2148 | 71.4466 | 27458 | 3303 | 27386 | 13358 | 11870 | 88.8606 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 79.4183 | 79.5592 | 79.2778 | 75.7467 | 51260 | 13170 | 51089 | 13354 | 8419 | 63.0448 | |
| jpowers-varprowl | SNP | * | * | het | 99.3161 | 99.3290 | 99.3033 | 25.1238 | 1861010 | 12572 | 1861335 | 13059 | 459 | 3.5148 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 56.4584 | 55.1138 | 57.8702 | 55.3114 | 17632 | 14360 | 17879 | 13016 | 10534 | 80.9312 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 44.0360 | 38.0774 | 52.2053 | 83.4017 | 11606 | 18874 | 14180 | 12982 | 2052 | 15.8065 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 44.0360 | 38.0774 | 52.2053 | 83.4017 | 11606 | 18874 | 14180 | 12982 | 2052 | 15.8065 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 62.0729 | 98.0650 | 45.4073 | 82.4158 | 10592 | 209 | 10757 | 12933 | 236 | 1.8248 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 61.1245 | 61.5551 | 60.6998 | 48.1943 | 13696 | 8554 | 19966 | 12927 | 11157 | 86.3077 | |
| gduggal-snapvard | INDEL | * | HG002complexvar | * | 84.5803 | 84.0929 | 85.0735 | 55.5785 | 64696 | 12238 | 73113 | 12828 | 8678 | 67.6489 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 71.1558 | 89.0067 | 59.2690 | 47.6573 | 7473 | 923 | 18665 | 12827 | 11064 | 86.2556 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 69.5318 | 96.2754 | 54.4161 | 53.0143 | 15173 | 587 | 15255 | 12779 | 12436 | 97.3159 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 60.8792 | 59.0648 | 62.8085 | 52.6630 | 21613 | 14979 | 21581 | 12779 | 12331 | 96.4942 | |
| anovak-vg | INDEL | D1_5 | * | * | 90.2130 | 89.2296 | 91.2183 | 56.6455 | 130940 | 15805 | 132532 | 12759 | 9010 | 70.6168 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 69.3555 | 95.9010 | 54.3198 | 55.3205 | 15114 | 646 | 15165 | 12753 | 12310 | 96.5263 | |
| ghariani-varprowl | INDEL | I1_5 | * | * | 89.9389 | 88.6296 | 91.2876 | 58.9415 | 133532 | 17131 | 133404 | 12732 | 11050 | 86.7892 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 50.2628 | 41.8345 | 62.9440 | 73.1508 | 18129 | 25206 | 21603 | 12718 | 4309 | 33.8811 | |
| anovak-vg | SNP | * | map_l125_m2_e1 | * | 81.3800 | 87.2421 | 76.2560 | 76.1127 | 41180 | 6022 | 40707 | 12675 | 2820 | 22.2485 | |
| mlin-fermikit | SNP | * | * | homalt | 98.9666 | 99.0041 | 98.9290 | 17.0911 | 1168409 | 11753 | 1168425 | 12649 | 12153 | 96.0787 | |
| gduggal-snapplat | INDEL | D1_5 | * | het | 85.0942 | 83.0201 | 87.2745 | 66.1285 | 72704 | 14870 | 86462 | 12607 | 2010 | 15.9435 | |
| anovak-vg | SNP | * | map_l125_m2_e0 | * | 81.2942 | 87.1691 | 76.1613 | 76.0893 | 40728 | 5995 | 40268 | 12604 | 2812 | 22.3104 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 67.7028 | 91.6754 | 53.6688 | 45.2639 | 10528 | 956 | 14570 | 12578 | 12360 | 98.2668 | |
| anovak-vg | SNP | * | map_l125_m2_e1 | het | 77.5666 | 90.5162 | 67.8585 | 78.1432 | 26829 | 2811 | 26551 | 12576 | 2737 | 21.7637 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 86.9712 | 95.7121 | 79.6933 | 69.9711 | 29442 | 1319 | 49260 | 12552 | 12425 | 98.9882 | |
| ghariani-varprowl | INDEL | D1_5 | * | het | 92.9952 | 99.3560 | 87.3999 | 64.6847 | 87009 | 564 | 86983 | 12540 | 10606 | 84.5774 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 66.9508 | 90.0254 | 53.2915 | 48.7249 | 14188 | 1572 | 14272 | 12509 | 12414 | 99.2405 | |
| anovak-vg | SNP | * | map_l125_m2_e0 | het | 77.4707 | 90.4768 | 67.7339 | 78.1138 | 26526 | 2792 | 26255 | 12507 | 2731 | 21.8358 | |
| mlin-fermikit | INDEL | * | * | * | 95.5997 | 94.8918 | 96.3183 | 54.9677 | 326942 | 17600 | 326572 | 12483 | 12097 | 96.9078 | |
| gduggal-snapfb | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 84.6436 | 98.9102 | 73.9737 | 69.3624 | 35033 | 386 | 35409 | 12458 | 341 | 2.7372 | |
| anovak-vg | SNP | * | map_l125_m1_e0 | * | 81.0489 | 87.0673 | 75.8087 | 74.5245 | 39465 | 5862 | 39018 | 12451 | 2766 | 22.2151 | |
| 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 | |
| anovak-vg | SNP | * | map_l125_m1_e0 | het | 77.1793 | 90.4691 | 67.2939 | 76.7918 | 25686 | 2706 | 25425 | 12357 | 2688 | 21.7529 | |
| gduggal-snapvard | INDEL | * | HG002complexvar | het | 85.1014 | 90.1233 | 80.6095 | 59.0444 | 41646 | 4564 | 51233 | 12324 | 8222 | 66.7154 | |
| anovak-vg | INDEL | I1_5 | HG002complexvar | homalt | 67.3378 | 96.3340 | 51.7586 | 45.0635 | 12955 | 493 | 13156 | 12262 | 11858 | 96.7053 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 62.7686 | 68.2214 | 58.1230 | 35.1882 | 8542 | 3979 | 16951 | 12213 | 9571 | 78.3673 | |
| anovak-vg | INDEL | I1_5 | * | het | 38.2803 | 26.6836 | 67.7044 | 67.2836 | 21091 | 57950 | 25553 | 12189 | 4021 | 32.9888 | |
| ciseli-custom | SNP | * | HG002compoundhet | * | 73.2436 | 85.0050 | 64.3413 | 46.5864 | 21950 | 3872 | 21988 | 12186 | 1203 | 9.8720 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 82.0846 | 86.7638 | 77.8844 | 75.9358 | 41880 | 6389 | 42785 | 12149 | 5113 | 42.0858 | |
| ciseli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 88.8947 | 97.3720 | 81.7754 | 63.9228 | 54169 | 1462 | 54352 | 12113 | 797 | 6.5797 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 59.6473 | 59.7203 | 59.5745 | 39.9758 | 12300 | 8296 | 17724 | 12027 | 10545 | 87.6777 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 70.3688 | 88.2855 | 58.4973 | 39.9312 | 6519 | 865 | 16856 | 11959 | 10481 | 87.6411 | |
| ciseli-custom | SNP | ti | HG002complexvar | homalt | 96.5088 | 99.0536 | 94.0915 | 19.4065 | 191633 | 1831 | 189105 | 11875 | 5178 | 43.6042 | |
| ciseli-custom | SNP | * | map_siren | * | 89.7321 | 87.9989 | 91.5349 | 59.0239 | 128679 | 17549 | 128115 | 11848 | 2967 | 25.0422 | |
| gduggal-bwavard | SNP | * | * | * | 99.3249 | 99.0431 | 99.6083 | 22.9016 | 3025405 | 29229 | 3004827 | 11817 | 3477 | 29.4237 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 81.9557 | 95.2253 | 71.9321 | 77.0498 | 29656 | 1487 | 30041 | 11722 | 436 | 3.7195 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 81.9557 | 95.2253 | 71.9321 | 77.0498 | 29656 | 1487 | 30041 | 11722 | 436 | 3.7195 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.7666 | 97.5737 | 37.1070 | 80.0383 | 6716 | 167 | 6880 | 11661 | 159 | 1.3635 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 65.4034 | 58.8863 | 73.5426 | 80.9801 | 28425 | 19846 | 32333 | 11632 | 1955 | 16.8071 | |
| jpowers-varprowl | INDEL | D1_5 | * | * | 89.7951 | 87.9294 | 91.7417 | 58.6226 | 129032 | 17713 | 128909 | 11604 | 11168 | 96.2427 | |
| qzeng-custom | INDEL | * | * | * | 96.8316 | 96.8703 | 96.7929 | 56.5999 | 333759 | 10783 | 347076 | 11500 | 5547 | 48.2348 | |