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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62851-62900 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1507 | 97.5083 | 94.8304 | 50.6380 | 587 | 15 | 587 | 32 | 31 | 96.8750 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l100_m0_e0 | het | 98.7377 | 99.1540 | 98.3250 | 82.6403 | 586 | 5 | 587 | 10 | 1 | 10.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 52.1029 | 79.6221 | 38.7203 | 60.5927 | 590 | 151 | 587 | 929 | 868 | 93.4338 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.3232 | 99.1554 | 99.4915 | 83.5517 | 587 | 5 | 587 | 3 | 2 | 66.6667 | |
| jli-custom | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.3232 | 99.1554 | 99.4915 | 81.9902 | 587 | 5 | 587 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 38.6951 | 60.3306 | 28.4813 | 61.2448 | 584 | 384 | 587 | 1474 | 1454 | 98.6431 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.4879 | 96.2662 | 96.7105 | 67.7111 | 593 | 23 | 588 | 20 | 18 | 90.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.5766 | 99.3243 | 99.8302 | 79.6546 | 588 | 4 | 588 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.6246 | 94.1088 | 97.1901 | 77.6009 | 623 | 39 | 588 | 17 | 5 | 29.4118 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.5766 | 99.3243 | 99.8302 | 80.5031 | 588 | 4 | 588 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.2405 | 99.3243 | 99.1568 | 82.6608 | 588 | 4 | 588 | 5 | 4 | 80.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 50.2132 | 87.3684 | 35.2307 | 72.3584 | 581 | 84 | 588 | 1081 | 1065 | 98.5199 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 43.5514 | 40.6847 | 46.8526 | 86.1967 | 511 | 745 | 588 | 667 | 17 | 2.5487 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.5773 | 99.4932 | 99.6616 | 80.9170 | 589 | 3 | 589 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.6243 | 90.3481 | 99.3255 | 49.4027 | 571 | 61 | 589 | 4 | 4 | 100.0000 | |
| qzeng-custom | SNP | tv | map_l250_m2_e1 | homalt | 76.2953 | 62.2622 | 98.4950 | 89.7339 | 589 | 357 | 589 | 9 | 9 | 100.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.4929 | 96.4286 | 96.5574 | 68.3610 | 594 | 22 | 589 | 21 | 20 | 95.2381 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8101 | 96.4286 | 97.1947 | 67.9535 | 594 | 22 | 589 | 17 | 15 | 88.2353 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.5773 | 99.4932 | 99.6616 | 83.0562 | 589 | 3 | 589 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.4932 | 99.4932 | 99.4932 | 83.1098 | 589 | 3 | 589 | 3 | 2 | 66.6667 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m2_e0 | het | 98.0741 | 98.6381 | 97.5166 | 87.5310 | 507 | 7 | 589 | 15 | 5 | 33.3333 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 49.6103 | 86.3158 | 34.8083 | 73.4368 | 574 | 91 | 590 | 1105 | 1001 | 90.5882 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.2480 | 98.0066 | 94.5513 | 51.4774 | 590 | 12 | 590 | 34 | 33 | 97.0588 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8147 | 96.5909 | 97.0395 | 67.8647 | 595 | 21 | 590 | 18 | 16 | 88.8889 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e1 | homalt | 88.9945 | 81.6129 | 97.8441 | 87.0712 | 506 | 114 | 590 | 13 | 1 | 7.6923 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.3266 | 99.6622 | 98.9933 | 82.4396 | 590 | 2 | 590 | 6 | 5 | 83.3333 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 80.4044 | 84.5779 | 76.6234 | 63.7476 | 521 | 95 | 590 | 180 | 64 | 35.5556 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.9735 | 92.2961 | 93.6609 | 72.5054 | 611 | 51 | 591 | 40 | 14 | 35.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 49.7249 | 53.1915 | 46.6825 | 69.1220 | 400 | 352 | 591 | 675 | 539 | 79.8519 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.3233 | 94.2598 | 96.4111 | 77.4217 | 624 | 38 | 591 | 22 | 8 | 36.3636 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 89.9543 | 98.1728 | 83.0056 | 50.9979 | 591 | 11 | 591 | 121 | 120 | 99.1736 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.5779 | 99.4932 | 99.6627 | 79.8505 | 589 | 3 | 591 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.9781 | 96.7532 | 97.2039 | 68.1675 | 596 | 20 | 591 | 17 | 15 | 88.2353 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.5378 | 78.4574 | 98.9950 | 44.8753 | 590 | 162 | 591 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 87.5916 | 78.3357 | 99.3277 | 35.7451 | 546 | 151 | 591 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.9781 | 96.7532 | 97.2039 | 68.0840 | 596 | 20 | 591 | 17 | 15 | 88.2353 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 37.1500 | 27.9605 | 55.3371 | 59.9550 | 595 | 1533 | 591 | 477 | 362 | 75.8910 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8986 | 96.7532 | 97.0443 | 67.8288 | 596 | 20 | 591 | 18 | 16 | 88.8889 | |
| cchapple-custom | INDEL | D1_5 | map_l100_m2_e0 | homalt | 98.6763 | 97.7087 | 99.6633 | 80.4154 | 597 | 14 | 592 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.5988 | 98.6711 | 89.0226 | 42.7218 | 594 | 8 | 592 | 73 | 71 | 97.2603 | |
| ckim-isaac | INDEL | * | map_l150_m2_e1 | het | 77.5885 | 64.0693 | 98.3389 | 92.5319 | 592 | 332 | 592 | 10 | 4 | 40.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l100_m2_e1 | het | 84.0909 | 73.0864 | 98.9967 | 93.0683 | 592 | 218 | 592 | 6 | 1 | 16.6667 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 91.4286 | 91.2173 | 91.6409 | 57.2469 | 592 | 57 | 592 | 54 | 52 | 96.2963 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 42.9780 | 30.8511 | 70.8134 | 48.1390 | 145 | 325 | 592 | 244 | 168 | 68.8525 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m0_e0 | * | 80.7640 | 68.5979 | 98.1758 | 85.4699 | 592 | 271 | 592 | 11 | 4 | 36.3636 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002complexvar | het | 93.2920 | 90.2256 | 96.5742 | 65.0712 | 600 | 65 | 592 | 21 | 7 | 33.3333 | |
| 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 | |
| anovak-vg | SNP | tv | map_l250_m0_e0 | * | 73.9996 | 77.6471 | 70.6794 | 95.9856 | 594 | 171 | 593 | 246 | 53 | 21.5447 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.8668 | 98.5050 | 86.0668 | 52.0529 | 593 | 9 | 593 | 96 | 87 | 90.6250 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m0_e0 | * | 97.8783 | 97.4194 | 98.3416 | 86.6297 | 302 | 8 | 593 | 10 | 6 | 60.0000 | |