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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17701-17750 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | D1_5 | map_l125_m2_e1 | het | 98.0570 | 98.3117 | 97.8036 | 86.2863 | 757 | 13 | 757 | 17 | 4 | 23.5294 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0566 | 99.8141 | 96.3599 | 59.7337 | 3759 | 7 | 3759 | 142 | 138 | 97.1831 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.0566 | 99.8141 | 96.3599 | 59.7337 | 3759 | 7 | 3759 | 142 | 138 | 97.1831 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0559 | 96.7947 | 99.3503 | 55.8922 | 41946 | 1389 | 42206 | 276 | 166 | 60.1449 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 98.0558 | 96.7692 | 99.3769 | 23.2975 | 629 | 21 | 638 | 4 | 4 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.0554 | 100.0000 | 96.1851 | 55.9528 | 2370 | 0 | 2370 | 94 | 93 | 98.9362 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0553 | 99.6017 | 96.5562 | 49.9027 | 3751 | 15 | 3729 | 133 | 130 | 97.7444 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.0553 | 99.6017 | 96.5562 | 49.9027 | 3751 | 15 | 3729 | 133 | 130 | 97.7444 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.0545 | 97.4227 | 98.6945 | 75.5740 | 378 | 10 | 378 | 5 | 2 | 40.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0545 | 99.2126 | 96.9231 | 76.0589 | 126 | 1 | 126 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | map_siren | homalt | 98.0545 | 96.9231 | 99.2126 | 81.6739 | 126 | 4 | 126 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.0545 | 97.4227 | 98.6945 | 74.6358 | 378 | 10 | 378 | 5 | 1 | 20.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.0544 | 97.1545 | 98.9712 | 53.5817 | 478 | 14 | 481 | 5 | 3 | 60.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | HG002complexvar | * | 98.0543 | 96.8698 | 99.2681 | 50.7658 | 4642 | 150 | 4340 | 32 | 18 | 56.2500 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e0 | het | 98.0541 | 97.8599 | 98.2490 | 88.2809 | 503 | 11 | 505 | 9 | 2 | 22.2222 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0536 | 99.7374 | 96.4257 | 55.6216 | 9496 | 25 | 9496 | 352 | 346 | 98.2955 | |
| jpowers-varprowl | SNP | * | map_l100_m2_e1 | * | 98.0534 | 97.7615 | 98.3471 | 71.6291 | 73064 | 1673 | 73066 | 1228 | 334 | 27.1987 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0533 | 97.6374 | 98.4728 | 67.8136 | 63807 | 1544 | 63576 | 986 | 844 | 85.5984 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0533 | 97.6374 | 98.4728 | 67.8136 | 63807 | 1544 | 63576 | 986 | 844 | 85.5984 | |
| gduggal-bwavard | SNP | tv | map_l250_m2_e0 | homalt | 98.0530 | 96.7983 | 99.3407 | 88.0609 | 907 | 30 | 904 | 6 | 4 | 66.6667 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.0521 | 96.8708 | 99.2627 | 50.9309 | 6470 | 209 | 6462 | 48 | 45 | 93.7500 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0520 | 97.3439 | 98.7704 | 57.5661 | 42184 | 1151 | 42011 | 523 | 468 | 89.4837 | |
| ndellapenna-hhga | SNP | tv | HG002compoundhet | * | 98.0516 | 97.2879 | 98.8274 | 47.0684 | 8681 | 242 | 8681 | 103 | 93 | 90.2913 | |
| ckim-dragen | SNP | tv | map_l100_m2_e0 | het | 98.0513 | 99.1697 | 96.9579 | 75.2085 | 15646 | 131 | 15649 | 491 | 32 | 6.5173 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0513 | 97.3461 | 98.7668 | 74.5506 | 917 | 25 | 881 | 11 | 5 | 45.4545 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m0_e0 | het | 98.0506 | 97.8003 | 98.3022 | 82.9226 | 578 | 13 | 579 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | het | 98.0504 | 98.0824 | 98.0184 | 89.8484 | 1381 | 27 | 1385 | 28 | 4 | 14.2857 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e0 | * | 98.0504 | 98.0824 | 98.0184 | 91.3212 | 1381 | 27 | 1385 | 28 | 6 | 21.4286 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.0504 | 99.1851 | 96.9413 | 58.5086 | 4260 | 35 | 4342 | 137 | 1 | 0.7299 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.0504 | 96.7449 | 99.3916 | 61.8066 | 1278 | 43 | 1307 | 8 | 8 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0502 | 96.8343 | 99.2971 | 55.9217 | 15539 | 508 | 15540 | 110 | 95 | 86.3636 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 98.0498 | 97.4110 | 98.6971 | 91.7517 | 301 | 8 | 303 | 4 | 0 | 0.0000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.0495 | 96.4138 | 99.7416 | 53.4125 | 16561 | 616 | 16599 | 43 | 38 | 88.3721 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.0494 | 98.1771 | 97.9221 | 86.1908 | 377 | 7 | 377 | 8 | 2 | 25.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l125_m2_e0 | * | 98.0491 | 96.8495 | 99.2788 | 82.1574 | 830 | 27 | 826 | 6 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e0 | homalt | 98.0484 | 96.3703 | 99.7860 | 62.8472 | 26524 | 999 | 26107 | 56 | 43 | 76.7857 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0480 | 100.0000 | 96.1708 | 73.2150 | 653 | 0 | 653 | 26 | 25 | 96.1538 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0480 | 100.0000 | 96.1708 | 73.2150 | 653 | 0 | 653 | 26 | 25 | 96.1538 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0480 | 100.0000 | 96.1708 | 73.1621 | 653 | 0 | 653 | 26 | 25 | 96.1538 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m0_e0 | * | 98.0476 | 98.8413 | 97.2665 | 85.1010 | 853 | 10 | 854 | 24 | 3 | 12.5000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0475 | 97.3843 | 98.7198 | 54.0333 | 21668 | 582 | 21669 | 281 | 267 | 95.0178 | |
| jpowers-varprowl | SNP | * | map_l100_m2_e0 | * | 98.0473 | 97.7530 | 98.3434 | 71.6108 | 72302 | 1662 | 72304 | 1218 | 332 | 27.2578 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | * | 98.0472 | 98.7814 | 97.3239 | 88.0481 | 1378 | 17 | 1382 | 38 | 5 | 13.1579 | |
| bgallagher-sentieon | INDEL | * | map_l100_m1_e0 | het | 98.0470 | 98.6577 | 97.4438 | 85.8435 | 2205 | 30 | 2211 | 58 | 11 | 18.9655 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m1_e0 | * | 98.0469 | 96.8750 | 99.2474 | 78.8205 | 1054 | 34 | 1055 | 8 | 1 | 12.5000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m0_e0 | het | 98.0464 | 99.0099 | 97.1014 | 89.8080 | 200 | 2 | 201 | 6 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0454 | 96.7804 | 99.3438 | 49.5652 | 30962 | 1030 | 30885 | 204 | 187 | 91.6667 | |
| gduggal-bwafb | SNP | ti | map_l150_m0_e0 | het | 98.0450 | 97.9007 | 98.1897 | 82.8404 | 4990 | 107 | 4990 | 92 | 34 | 36.9565 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.0447 | 96.7213 | 99.4048 | 55.2000 | 118 | 4 | 167 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.0445 | 97.1326 | 98.9736 | 79.7926 | 1355 | 40 | 1350 | 14 | 2 | 14.2857 | |