PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13901-13950 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4945 | 99.5196 | 97.4902 | 74.7924 | 1243 | 6 | 1243 | 32 | 23 | 71.8750 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.1550 | 91.2173 | 95.1768 | 58.7259 | 592 | 57 | 592 | 30 | 23 | 76.6667 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 86.3392 | 79.6642 | 94.2350 | 61.3539 | 427 | 109 | 425 | 26 | 23 | 88.4615 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.0522 | 92.1444 | 96.0407 | 70.6215 | 868 | 74 | 849 | 35 | 23 | 65.7143 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8850 | 98.5441 | 99.2284 | 79.4839 | 3858 | 57 | 3858 | 30 | 23 | 76.6667 | |
| egarrison-hhga | SNP | * | map_l125_m0_e0 | * | 99.2012 | 98.6588 | 99.7496 | 73.5088 | 19125 | 260 | 19125 | 48 | 23 | 47.9167 | |
| egarrison-hhga | SNP | ti | segdup | homalt | 99.8003 | 99.9067 | 99.6942 | 88.4424 | 7498 | 7 | 7498 | 23 | 23 | 100.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 67.6681 | 53.6481 | 91.6084 | 85.7570 | 125 | 108 | 262 | 24 | 23 | 95.8333 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 62.1754 | 45.8288 | 96.6488 | 62.3613 | 423 | 500 | 721 | 25 | 23 | 92.0000 | |
| eyeh-varpipe | INDEL | * | map_l100_m0_e0 | het | 96.6024 | 96.1802 | 97.0283 | 84.1962 | 982 | 39 | 1404 | 43 | 23 | 53.4884 | |
| eyeh-varpipe | INDEL | * | map_l150_m2_e0 | homalt | 96.9842 | 97.0894 | 96.8792 | 89.5683 | 467 | 14 | 714 | 23 | 23 | 100.0000 | |
| gduggal-snapplat | SNP | * | map_siren | homalt | 97.4154 | 95.0214 | 99.9332 | 54.3867 | 52410 | 2746 | 52361 | 35 | 23 | 65.7143 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 69.9531 | 58.7771 | 86.3768 | 94.4057 | 298 | 209 | 298 | 47 | 23 | 48.9362 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 36.7887 | 26.4368 | 60.4651 | 99.9570 | 23 | 64 | 52 | 34 | 23 | 67.6471 | |
| gduggal-snapfb | SNP | ti | * | hetalt | 78.4605 | 99.8282 | 64.6274 | 61.2500 | 581 | 1 | 581 | 318 | 23 | 7.2327 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 15.4909 | 90.1316 | 8.4736 | 78.2178 | 137 | 15 | 151 | 1631 | 23 | 1.4102 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 71.8992 | 96.8668 | 57.1649 | 88.9701 | 371 | 12 | 371 | 278 | 23 | 8.2734 | |
| gduggal-snapfb | SNP | ti | segdup | * | 99.1459 | 99.5137 | 98.7809 | 90.9477 | 19442 | 95 | 19446 | 240 | 23 | 9.5833 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 50.4391 | 35.8961 | 84.7921 | 83.3242 | 677 | 1209 | 775 | 139 | 23 | 16.5468 | |
| ghariani-varprowl | INDEL | I16_PLUS | map_siren | het | 73.0435 | 85.7143 | 63.6364 | 80.1205 | 42 | 7 | 42 | 24 | 23 | 95.8333 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 79.6423 | 87.1021 | 73.3594 | 90.7618 | 2627 | 389 | 2627 | 954 | 23 | 2.4109 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.5127 | 86.3519 | 84.6897 | 75.2304 | 5340 | 844 | 5349 | 967 | 23 | 2.3785 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 35.9909 | 40.9326 | 32.1138 | 96.9858 | 158 | 228 | 158 | 334 | 23 | 6.8862 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 25.0000 | 67.1429 | 0 | 206 | 23 | 69 | 23 | 33.3333 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 24.1758 | 67.1480 | 0 | 95 | 22 | 69 | 23 | 33.3333 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 28.4211 | 61.3821 | 0 | 133 | 27 | 68 | 23 | 33.8235 | |
| gduggal-snapvard | SNP | * | func_cds | * | 99.3360 | 99.0138 | 99.6603 | 29.3432 | 17971 | 179 | 17895 | 61 | 23 | 37.7049 | |
| gduggal-snapvard | SNP | ti | map_l100_m0_e0 | homalt | 97.3605 | 95.2148 | 99.6052 | 63.3538 | 7402 | 372 | 7316 | 29 | 23 | 79.3103 | |
| jpowers-varprowl | INDEL | I16_PLUS | map_siren | het | 61.5385 | 65.3061 | 58.1818 | 76.2931 | 32 | 17 | 32 | 23 | 23 | 100.0000 | |
| jli-custom | SNP | * | map_l250_m1_e0 | het | 97.5495 | 96.2776 | 98.8555 | 86.3033 | 4578 | 177 | 4578 | 53 | 23 | 43.3962 | |
| jli-custom | SNP | tv | map_l150_m1_e0 | * | 99.0626 | 98.7812 | 99.3456 | 71.0917 | 10779 | 133 | 10778 | 71 | 23 | 32.3944 | |
| jli-custom | SNP | tv | map_l150_m2_e0 | * | 99.0817 | 98.8287 | 99.3360 | 73.0560 | 11222 | 133 | 11221 | 75 | 23 | 30.6667 | |
| jli-custom | SNP | tv | map_l150_m2_e1 | * | 99.0935 | 98.8437 | 99.3446 | 73.0880 | 11369 | 133 | 11368 | 75 | 23 | 30.6667 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6504 | 99.6818 | 99.6191 | 61.4842 | 55454 | 177 | 55443 | 212 | 23 | 10.8491 | |
| jmaeng-gatk | SNP | * | map_l150_m0_e0 | * | 72.2268 | 57.5050 | 97.0803 | 92.6384 | 6919 | 5113 | 6916 | 208 | 23 | 11.0577 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002compoundhet | * | 94.7189 | 90.8586 | 98.9217 | 29.6040 | 2127 | 214 | 2110 | 23 | 23 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | map_l100_m0_e0 | * | 98.8943 | 98.0421 | 99.7614 | 58.2016 | 32198 | 643 | 32201 | 77 | 23 | 29.8701 | |
| ltrigg-rtg1 | SNP | ti | HG002complexvar | het | 99.8233 | 99.6823 | 99.9646 | 17.0356 | 313766 | 1000 | 313778 | 111 | 23 | 20.7207 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.7792 | 98.5236 | 99.0362 | 55.6925 | 10944 | 164 | 10892 | 106 | 23 | 21.6981 | |
| jmaeng-gatk | SNP | tv | * | homalt | 99.5328 | 99.0793 | 99.9904 | 20.3157 | 373651 | 3472 | 373637 | 36 | 23 | 63.8889 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m0_e0 | * | 93.8918 | 93.5110 | 94.2757 | 85.2184 | 807 | 56 | 807 | 49 | 23 | 46.9388 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6877 | 98.2028 | 99.1775 | 66.2939 | 3497 | 64 | 3497 | 29 | 23 | 79.3103 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7249 | 98.9214 | 96.5569 | 66.6334 | 642 | 7 | 645 | 23 | 23 | 100.0000 | |
| jli-custom | INDEL | I6_15 | HG002complexvar | * | 98.1083 | 96.8489 | 99.4008 | 55.2909 | 4641 | 151 | 4645 | 28 | 23 | 82.1429 | |
| jli-custom | INDEL | I6_15 | HG002complexvar | homalt | 99.0196 | 99.8353 | 98.2172 | 53.8692 | 1212 | 2 | 1212 | 22 | 22 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.2668 | 99.8469 | 96.7359 | 71.1719 | 652 | 1 | 652 | 22 | 22 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6890 | 98.1776 | 99.2058 | 77.1478 | 6303 | 117 | 6246 | 50 | 22 | 44.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.3228 | 86.1277 | 97.1847 | 65.3666 | 863 | 139 | 863 | 25 | 22 | 88.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6890 | 98.1776 | 99.2058 | 77.1478 | 6303 | 117 | 6246 | 50 | 22 | 44.0000 | |
| jmaeng-gatk | SNP | ti | HG002compoundhet | * | 99.3792 | 98.9129 | 99.8498 | 36.3432 | 17288 | 190 | 17288 | 26 | 22 | 84.6154 | |