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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
83201-83250 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.1594 | 97.2539 | 97.0650 | 73.4982 | 29643 | 837 | 30823 | 932 | 445 | 47.7468 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 64.4166 | 93.0962 | 49.2457 | 68.6592 | 445 | 33 | 457 | 471 | 445 | 94.4798 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.5413 | 96.7290 | 88.7011 | 66.3212 | 3519 | 119 | 3517 | 448 | 445 | 99.3304 | |
| mlin-fermikit | SNP | * | map_l250_m1_e0 | homalt | 51.7475 | 41.7783 | 67.9657 | 72.7453 | 1029 | 1434 | 1029 | 485 | 445 | 91.7526 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 75.3026 | 95.6815 | 62.0803 | 56.2366 | 709 | 32 | 758 | 463 | 445 | 96.1123 | |
| ckim-isaac | SNP | ti | HG002complexvar | * | 96.1858 | 92.7592 | 99.8753 | 15.7158 | 471622 | 36815 | 471809 | 589 | 446 | 75.7216 | |
| mlin-fermikit | SNP | * | map_l250_m1_e0 | * | 45.7291 | 31.7641 | 81.6080 | 76.7628 | 2294 | 4928 | 2294 | 517 | 446 | 86.2669 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.3493 | 98.1589 | 98.5404 | 55.2323 | 31403 | 589 | 31326 | 464 | 446 | 96.1207 | |
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | * | 58.0113 | 59.2233 | 56.8479 | 83.7016 | 793 | 546 | 826 | 627 | 447 | 71.2919 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9358 | 97.0774 | 98.8095 | 45.2536 | 31057 | 935 | 41417 | 499 | 447 | 89.5792 | |
| rpoplin-dv42 | INDEL | D6_15 | * | het | 97.5270 | 99.0079 | 96.0896 | 61.5469 | 11477 | 115 | 11451 | 466 | 447 | 95.9227 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.1545 | 88.4965 | 93.9771 | 38.2912 | 8370 | 1088 | 8301 | 532 | 447 | 84.0226 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 29.6749 | 20.1610 | 56.1914 | 69.4731 | 601 | 2380 | 599 | 467 | 448 | 95.9315 | |
| ckim-dragen | INDEL | I6_15 | * | * | 97.2249 | 96.4630 | 97.9990 | 52.8733 | 23945 | 878 | 23949 | 489 | 448 | 91.6155 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 92.1119 | 93.7088 | 90.5685 | 58.7145 | 1847 | 124 | 5608 | 584 | 448 | 76.7123 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 92.1119 | 93.7088 | 90.5685 | 58.7145 | 1847 | 124 | 5608 | 584 | 448 | 76.7123 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 81.8133 | 75.2350 | 89.6520 | 58.5736 | 3761 | 1238 | 3942 | 455 | 448 | 98.4615 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 81.8133 | 75.2350 | 89.6520 | 58.5736 | 3761 | 1238 | 3942 | 455 | 448 | 98.4615 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 56.0716 | 49.9257 | 63.9431 | 62.6651 | 2017 | 2023 | 3506 | 1977 | 448 | 22.6606 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 39.2277 | 31.6516 | 51.5719 | 45.1410 | 665 | 1436 | 853 | 801 | 448 | 55.9301 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.8254 | 69.6160 | 96.3373 | 74.6865 | 21865 | 9543 | 21857 | 831 | 448 | 53.9110 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 80.8254 | 69.6160 | 96.3373 | 74.6865 | 21865 | 9543 | 21857 | 831 | 448 | 53.9110 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.0746 | 98.4739 | 97.6786 | 54.4653 | 24972 | 387 | 25036 | 595 | 449 | 75.4622 | |
| ghariani-varprowl | INDEL | * | map_siren | * | 90.8910 | 92.7126 | 89.1397 | 90.4253 | 6870 | 540 | 6870 | 837 | 449 | 53.6440 | |
| qzeng-custom | SNP | ti | map_siren | het | 92.2591 | 86.5538 | 98.7696 | 67.2335 | 53994 | 8388 | 53703 | 669 | 449 | 67.1151 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 60.4770 | 91.1661 | 45.2459 | 46.8023 | 258 | 25 | 414 | 501 | 450 | 89.8204 | |
| gduggal-bwafb | INDEL | D16_PLUS | * | * | 85.9986 | 80.3656 | 92.4807 | 53.1498 | 5452 | 1332 | 5633 | 458 | 450 | 98.2533 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.1110 | 97.3601 | 98.8735 | 45.3846 | 35626 | 966 | 45291 | 516 | 450 | 87.2093 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.8272 | 98.5395 | 99.1166 | 73.0877 | 63490 | 941 | 63503 | 566 | 450 | 79.5053 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9489 | 97.2165 | 98.6923 | 51.4779 | 36847 | 1055 | 36679 | 486 | 451 | 92.7984 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.0855 | 97.5186 | 98.6590 | 52.4830 | 35684 | 908 | 35608 | 484 | 451 | 93.1818 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 56.5705 | 40.1699 | 95.6035 | 76.3129 | 6193 | 9224 | 10155 | 467 | 451 | 96.5739 | |
| gduggal-snapfb | SNP | * | * | homalt | 99.6988 | 99.7992 | 99.5986 | 21.4529 | 1177792 | 2370 | 1177860 | 4747 | 451 | 9.5007 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.1130 | 95.4143 | 96.8220 | 50.6721 | 14107 | 678 | 14106 | 463 | 453 | 97.8402 | |
| ltrigg-rtg1 | INDEL | * | * | * | 99.0160 | 98.3355 | 99.7061 | 56.0561 | 338806 | 5735 | 338554 | 998 | 454 | 45.4910 | |
| hfeng-pmm3 | INDEL | * | HG002compoundhet | homalt | 74.6579 | 99.4169 | 59.7721 | 77.4506 | 682 | 4 | 682 | 459 | 454 | 98.9107 | |
| asubramanian-gatk | INDEL | I1_5 | * | * | 99.0996 | 98.6108 | 99.5933 | 59.2515 | 148571 | 2093 | 148648 | 607 | 454 | 74.7941 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 56.2787 | 41.6430 | 86.7771 | 58.5183 | 3371 | 4724 | 3406 | 519 | 454 | 87.4759 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 57.0872 | 46.0813 | 75.0000 | 33.7450 | 1270 | 1486 | 1368 | 456 | 454 | 99.5614 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.4229 | 96.3710 | 98.4980 | 52.1860 | 30831 | 1161 | 30755 | 469 | 455 | 97.0149 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 75.4613 | 91.1765 | 64.3669 | 39.3284 | 775 | 75 | 849 | 470 | 455 | 96.8085 | |
| anovak-vg | INDEL | I1_5 | map_l100_m2_e0 | * | 58.1587 | 59.3567 | 57.0081 | 84.8215 | 812 | 556 | 846 | 638 | 455 | 71.3166 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.2432 | 98.6409 | 90.2208 | 73.3792 | 11395 | 157 | 11440 | 1240 | 455 | 36.6935 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.2432 | 98.6409 | 90.2208 | 73.3792 | 11395 | 157 | 11440 | 1240 | 455 | 36.6935 | |
| gduggal-snapfb | SNP | ti | map_l100_m1_e0 | * | 97.7504 | 97.6758 | 97.8250 | 66.4350 | 46817 | 1114 | 46822 | 1041 | 456 | 43.8040 | |
| gduggal-snapplat | SNP | ti | map_l150_m1_e0 | het | 92.8712 | 92.3848 | 93.3627 | 86.3201 | 11428 | 942 | 11450 | 814 | 456 | 56.0197 | |
| gduggal-snapvard | INDEL | * | HG002complexvar | homalt | 88.0378 | 80.0821 | 97.7484 | 41.5287 | 21643 | 5383 | 21880 | 504 | 456 | 90.4762 | |
| ckim-isaac | INDEL | D1_5 | HG002complexvar | * | 94.1980 | 91.4993 | 97.0606 | 47.3235 | 29934 | 2781 | 29752 | 901 | 456 | 50.6104 | |
| ckim-vqsr | INDEL | * | HG002compoundhet | het | 93.3882 | 98.2169 | 89.0120 | 79.6916 | 4021 | 73 | 3775 | 466 | 457 | 98.0687 | |
| qzeng-custom | INDEL | I6_15 | * | homalt | 92.4648 | 97.8362 | 87.6525 | 43.2864 | 6104 | 135 | 6105 | 860 | 457 | 53.1395 | |