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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
61251-61300 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | I1_5 | segdup | homalt | 99.4731 | 99.7886 | 99.1597 | 92.5718 | 472 | 1 | 472 | 4 | 4 | 100.0000 | |
| ckim-dragen | INDEL | * | map_l150_m2_e0 | homalt | 98.5364 | 98.1289 | 98.9474 | 89.1453 | 472 | 9 | 470 | 5 | 4 | 80.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 84.7659 | 96.9199 | 75.3205 | 52.5114 | 472 | 15 | 470 | 154 | 152 | 98.7013 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m1_e0 | het | 97.4411 | 97.3251 | 97.5575 | 83.6658 | 473 | 13 | 679 | 17 | 10 | 58.8235 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4742 | 98.9540 | 100.0000 | 69.2510 | 473 | 5 | 468 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I1_5 | segdup | homalt | 99.6825 | 100.0000 | 99.3671 | 91.5023 | 473 | 0 | 471 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.9164 | 96.9262 | 98.9270 | 73.8349 | 473 | 15 | 461 | 5 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.4384 | 95.9432 | 96.9388 | 58.1197 | 473 | 20 | 475 | 15 | 12 | 80.0000 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m0_e0 | het | 86.9445 | 80.0338 | 95.1613 | 92.6675 | 473 | 118 | 531 | 27 | 20 | 74.0741 | |
| ltrigg-rtg1 | INDEL | I1_5 | segdup | homalt | 99.6825 | 100.0000 | 99.3671 | 92.1924 | 473 | 0 | 471 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4742 | 98.9540 | 100.0000 | 75.3389 | 473 | 5 | 473 | 0 | 0 | ||
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 87.8228 | 89.7533 | 85.9736 | 75.4953 | 473 | 54 | 521 | 85 | 78 | 91.7647 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e0 | homalt | 98.4391 | 98.3368 | 98.5417 | 89.3000 | 473 | 8 | 473 | 7 | 4 | 57.1429 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e0 | homalt | 98.5417 | 98.3368 | 98.7474 | 89.6834 | 473 | 8 | 473 | 6 | 3 | 50.0000 | |
| ciseli-custom | SNP | ti | * | hetalt | 87.1087 | 81.2715 | 93.8492 | 39.4958 | 473 | 109 | 473 | 31 | 17 | 54.8387 | |
| cchapple-custom | INDEL | I1_5 | segdup | homalt | 99.6798 | 100.0000 | 99.3617 | 92.2211 | 473 | 0 | 467 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.8361 | 88.2463 | 97.9296 | 62.5291 | 473 | 63 | 473 | 10 | 9 | 90.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.9273 | 88.2463 | 98.1328 | 62.8086 | 473 | 63 | 473 | 9 | 8 | 88.8889 | |
| jlack-gatk | INDEL | * | map_l150_m2_e0 | homalt | 98.6472 | 98.5447 | 98.7500 | 89.0884 | 474 | 7 | 474 | 6 | 3 | 50.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m0_e0 | * | 97.4313 | 95.5645 | 99.3724 | 79.4409 | 474 | 22 | 475 | 3 | 1 | 33.3333 | |
| ndellapenna-hhga | INDEL | * | map_l150_m2_e0 | homalt | 98.6472 | 98.5447 | 98.7500 | 88.7981 | 474 | 7 | 474 | 6 | 4 | 66.6667 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m0_e0 | * | 85.0206 | 95.5645 | 76.5721 | 89.6278 | 474 | 22 | 621 | 190 | 41 | 21.5789 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m1_e0 | het | 83.7248 | 98.3402 | 72.8916 | 90.7572 | 474 | 8 | 605 | 225 | 50 | 22.2222 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m0_e0 | * | 95.1860 | 95.5645 | 94.8104 | 87.9856 | 474 | 22 | 475 | 26 | 7 | 26.9231 | |
| gduggal-snapvard | INDEL | * | map_l150_m0_e0 | * | 82.1730 | 92.2179 | 74.1015 | 92.7012 | 474 | 40 | 701 | 245 | 50 | 20.4082 | |
| ltrigg-rtg1 | INDEL | * | map_l150_m0_e0 | * | 95.2820 | 92.2179 | 98.5567 | 87.0112 | 474 | 40 | 478 | 7 | 2 | 28.5714 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.2397 | 84.0426 | 95.1220 | 53.9757 | 474 | 90 | 468 | 24 | 13 | 54.1667 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 18.6688 | 0.0000 | 0.0000 | 474 | 2065 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.7453 | 86.9963 | 90.5660 | 76.6520 | 475 | 71 | 480 | 50 | 32 | 64.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 52.6126 | 49.5308 | 56.1033 | 72.8835 | 475 | 484 | 478 | 374 | 353 | 94.3850 | |
| ghariani-varprowl | INDEL | D1_5 | map_l150_m1_e0 | het | 89.3697 | 98.5477 | 81.7556 | 92.0269 | 475 | 7 | 475 | 106 | 19 | 17.9245 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 65.5538 | 64.1026 | 67.0722 | 60.4154 | 475 | 266 | 882 | 433 | 97 | 22.4018 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 71.2817 | 75.3968 | 67.5926 | 74.1362 | 475 | 155 | 511 | 245 | 114 | 46.5306 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.1370 | 97.3361 | 96.9388 | 70.2670 | 475 | 13 | 475 | 15 | 11 | 73.3333 | |
| 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 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e0 | homalt | 98.7526 | 98.7526 | 98.7526 | 89.0183 | 475 | 6 | 475 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 88.7211 | 90.1328 | 87.3529 | 74.4841 | 475 | 52 | 594 | 86 | 81 | 94.1860 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l125_m2_e0 | het | 97.2343 | 95.5734 | 98.9540 | 80.5770 | 475 | 22 | 473 | 5 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | map_l150_m2_e0 | homalt | 98.9583 | 98.7526 | 99.1649 | 89.9349 | 475 | 6 | 475 | 4 | 2 | 50.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 97.9436 | 98.5477 | 97.3469 | 90.2488 | 475 | 7 | 477 | 13 | 2 | 15.3846 | |
| cchapple-custom | INDEL | I1_5 | map_l125_m2_e0 | het | 95.7357 | 95.5734 | 95.8984 | 87.7950 | 475 | 22 | 491 | 21 | 5 | 23.8095 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.3724 | 98.7526 | 100.0000 | 45.7143 | 475 | 6 | 475 | 0 | 0 | ||
| ckim-gatk | INDEL | * | map_l150_m2_e0 | homalt | 98.8554 | 98.7526 | 98.9583 | 89.9160 | 475 | 6 | 475 | 5 | 3 | 60.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2332 | 97.3361 | 99.1471 | 75.0399 | 475 | 13 | 465 | 4 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | I1_5 | map_l150_m2_e0 | * | 93.8735 | 91.5222 | 96.3489 | 90.4328 | 475 | 44 | 475 | 18 | 11 | 61.1111 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 93.8151 | 98.7552 | 89.3458 | 92.9596 | 476 | 6 | 478 | 57 | 4 | 7.0175 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m1_e0 | het | 96.6592 | 97.9424 | 95.4092 | 91.8124 | 476 | 10 | 478 | 23 | 1 | 4.3478 | |
| jli-custom | INDEL | D1_5 | map_l150_m1_e0 | het | 98.2480 | 98.7552 | 97.7459 | 87.7633 | 476 | 6 | 477 | 11 | 3 | 27.2727 | |
| jli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.5415 | 89.8113 | 99.7976 | 44.9275 | 476 | 54 | 493 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l125_m2_e1 | het | 96.3546 | 93.7008 | 99.1632 | 79.0901 | 476 | 32 | 474 | 4 | 0 | 0.0000 | |