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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62451-62500 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5396 | 92.6910 | 98.5689 | 43.9880 | 558 | 44 | 551 | 8 | 6 | 75.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 94.4254 | 93.6982 | 95.1641 | 69.9844 | 565 | 38 | 551 | 28 | 12 | 42.8571 | |
| ckim-vqsr | SNP | ti | HG002compoundhet | hetalt | 97.5221 | 95.1641 | 100.0000 | 22.7209 | 551 | 28 | 551 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.3412 | 90.9091 | 98.0427 | 61.3214 | 560 | 56 | 551 | 11 | 10 | 90.9091 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m0_e0 | het | 95.8851 | 93.1857 | 98.7455 | 80.3036 | 547 | 40 | 551 | 7 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m0_e0 | het | 96.3290 | 93.2318 | 99.6390 | 71.5167 | 551 | 40 | 552 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.5006 | 95.9083 | 87.4802 | 71.8304 | 586 | 25 | 552 | 79 | 77 | 97.4684 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 47.0909 | 41.9643 | 53.6443 | 57.0892 | 517 | 715 | 552 | 477 | 405 | 84.9057 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m1_e0 | het | 97.9475 | 98.5477 | 97.3545 | 86.9924 | 475 | 7 | 552 | 15 | 5 | 33.3333 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 73.8072 | 96.5392 | 59.7403 | 70.7317 | 530 | 19 | 552 | 372 | 31 | 8.3333 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 20.4886 | 18.2277 | 23.3898 | 80.8737 | 397 | 1781 | 552 | 1808 | 263 | 14.5465 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 84.5155 | 93.8346 | 76.8802 | 80.7197 | 624 | 41 | 552 | 166 | 157 | 94.5783 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 92.7288 | 90.2597 | 95.3368 | 64.7810 | 556 | 60 | 552 | 27 | 25 | 92.5926 | |
| asubramanian-gatk | SNP | tv | map_l150_m0_e0 | het | 32.4897 | 19.4161 | 99.4595 | 97.4792 | 552 | 2291 | 552 | 3 | 1 | 33.3333 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | * | 59.0339 | 60.9195 | 57.2614 | 87.6774 | 530 | 340 | 552 | 412 | 282 | 68.4466 | |
| jlack-gatk | SNP | tv | map_l250_m0_e0 | het | 86.9976 | 96.5035 | 79.1966 | 96.2107 | 552 | 20 | 552 | 145 | 5 | 3.4483 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 44.3448 | 92.6829 | 29.1447 | 34.4863 | 456 | 36 | 552 | 1342 | 1201 | 89.4933 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 83.9976 | 93.6170 | 76.1708 | 68.1299 | 572 | 39 | 553 | 173 | 168 | 97.1098 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 95.8242 | 95.3125 | 96.3415 | 60.8992 | 549 | 27 | 553 | 21 | 19 | 90.4762 | |
| qzeng-custom | SNP | ti | * | hetalt | 98.0808 | 96.9072 | 99.2832 | 55.8893 | 564 | 18 | 554 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | ti | * | hetalt | 97.3638 | 95.1890 | 99.6403 | 53.2773 | 554 | 28 | 554 | 2 | 2 | 100.0000 | |
| dgrover-gatk | SNP | tv | map_l250_m0_e0 | het | 96.5998 | 96.8531 | 96.3478 | 94.1784 | 554 | 18 | 554 | 21 | 2 | 9.5238 | |
| ckim-vqsr | SNP | ti | map_l150_m0_e0 | homalt | 33.4238 | 20.0652 | 100.0000 | 93.2216 | 554 | 2207 | 554 | 0 | 0 | ||
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 25.0124 | 14.6182 | 86.5625 | 67.4300 | 559 | 3265 | 554 | 86 | 66 | 76.7442 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 53.4023 | 37.0119 | 95.8478 | 69.3856 | 436 | 742 | 554 | 24 | 22 | 91.6667 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.5360 | 94.4171 | 98.7522 | 73.2347 | 575 | 34 | 554 | 7 | 4 | 57.1429 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 68.7772 | 52.7619 | 98.7522 | 77.3150 | 554 | 496 | 554 | 7 | 2 | 28.5714 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 73.1222 | 57.8728 | 99.2832 | 78.7023 | 555 | 404 | 554 | 4 | 2 | 50.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.9373 | 88.3333 | 95.8478 | 79.7335 | 424 | 56 | 554 | 24 | 21 | 87.5000 | |
| ciseli-custom | INDEL | D6_15 | HG002compoundhet | * | 6.6832 | 5.5814 | 8.3271 | 39.0416 | 504 | 8526 | 554 | 6099 | 5283 | 86.6208 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.3156 | 84.0190 | 100.0000 | 39.3209 | 531 | 101 | 554 | 0 | 0 | ||
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 68.5647 | 57.5184 | 84.8624 | 93.9078 | 547 | 404 | 555 | 99 | 45 | 45.4545 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 77.8308 | 85.3621 | 71.5206 | 64.6147 | 554 | 95 | 555 | 221 | 81 | 36.6516 | |
| ckim-vqsr | SNP | * | map_l250_m2_e0 | homalt | 34.2487 | 20.6627 | 100.0000 | 97.0120 | 555 | 2131 | 555 | 0 | 0 | ||
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 88.5339 | 85.2853 | 92.0398 | 83.8251 | 568 | 98 | 555 | 48 | 27 | 56.2500 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 88.5339 | 85.2853 | 92.0398 | 83.8251 | 568 | 98 | 555 | 48 | 27 | 56.2500 | |
| rpoplin-dv42 | SNP | tv | map_l250_m0_e0 | het | 97.0280 | 97.0280 | 97.0280 | 91.3647 | 555 | 17 | 555 | 17 | 12 | 70.5882 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 95.9028 | 92.2813 | 99.8201 | 63.6601 | 538 | 45 | 555 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | SNP | tv | map_l250_m0_e0 | het | 88.7470 | 97.2028 | 81.6446 | 94.8874 | 556 | 16 | 556 | 125 | 12 | 9.6000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0226 | 86.5506 | 98.2332 | 38.6117 | 547 | 85 | 556 | 10 | 9 | 90.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.3297 | 92.5249 | 84.4985 | 51.0052 | 557 | 45 | 556 | 102 | 61 | 59.8039 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.2998 | 97.1631 | 99.4633 | 61.2613 | 548 | 16 | 556 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 40.5868 | 37.3203 | 44.4800 | 81.8709 | 571 | 959 | 556 | 694 | 384 | 55.3314 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 40.5868 | 37.3203 | 44.4800 | 81.8709 | 571 | 959 | 556 | 694 | 384 | 55.3314 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.6796 | 92.5249 | 90.8497 | 49.7124 | 557 | 45 | 556 | 56 | 25 | 44.6429 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.2217 | 96.5630 | 88.2540 | 72.0249 | 590 | 21 | 556 | 74 | 70 | 94.5946 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 80.1664 | 67.4653 | 98.7589 | 27.5995 | 535 | 258 | 557 | 7 | 6 | 85.7143 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 86.9605 | 78.3357 | 97.7193 | 42.0142 | 546 | 151 | 557 | 13 | 12 | 92.3077 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 87.9958 | 80.4949 | 97.0383 | 67.7165 | 553 | 134 | 557 | 17 | 15 | 88.2353 | |
| hfeng-pmm1 | SNP | tv | map_l250_m0_e0 | het | 97.7193 | 97.3776 | 98.0634 | 92.6176 | 557 | 15 | 557 | 11 | 1 | 9.0909 | |