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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63401-63450 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 83.0586 | 77.6471 | 89.2809 | 34.5471 | 660 | 190 | 658 | 79 | 79 | 100.0000 | |
| gduggal-bwafb | INDEL | * | HG002compoundhet | homalt | 33.7522 | 95.9184 | 20.4793 | 75.1027 | 658 | 28 | 658 | 2555 | 2524 | 98.7867 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 85.1178 | 74.4266 | 99.3958 | 24.0826 | 649 | 223 | 658 | 4 | 4 | 100.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.5989 | 91.3889 | 95.9184 | 85.0610 | 658 | 62 | 658 | 28 | 8 | 28.5714 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 85.9189 | 75.5734 | 99.5461 | 25.8137 | 659 | 213 | 658 | 3 | 3 | 100.0000 | |
| anovak-vg | SNP | tv | map_l250_m2_e1 | homalt | 81.8854 | 69.7674 | 99.0977 | 89.2430 | 660 | 286 | 659 | 6 | 4 | 66.6667 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.7577 | 97.7169 | 82.9975 | 80.7748 | 856 | 20 | 659 | 135 | 120 | 88.8889 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m2_e1 | het | 89.3559 | 81.3580 | 99.0977 | 86.3869 | 659 | 151 | 659 | 6 | 1 | 16.6667 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 94.7213 | 91.5952 | 98.0684 | 63.9529 | 534 | 49 | 660 | 13 | 13 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | map_l150_m2_e1 | * | 82.1438 | 84.1902 | 80.1944 | 89.9891 | 655 | 123 | 660 | 163 | 64 | 39.2638 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 92.9504 | 91.0204 | 94.9640 | 50.7442 | 669 | 66 | 660 | 35 | 34 | 97.1429 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0959 | 99.3912 | 98.8024 | 75.4321 | 653 | 4 | 660 | 8 | 2 | 25.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 79.0248 | 67.8719 | 94.5637 | 68.1984 | 657 | 311 | 661 | 38 | 8 | 21.0526 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 86.6965 | 89.5833 | 83.9898 | 89.6733 | 645 | 75 | 661 | 126 | 8 | 6.3492 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 93.2394 | 90.3138 | 96.3610 | 69.7623 | 662 | 71 | 662 | 25 | 18 | 72.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.7699 | 98.6301 | 94.9785 | 83.2774 | 864 | 12 | 662 | 35 | 33 | 94.2857 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4084 | 97.8691 | 98.9537 | 78.0007 | 643 | 14 | 662 | 7 | 3 | 42.8571 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.6854 | 91.9137 | 95.5267 | 69.7908 | 682 | 60 | 662 | 31 | 19 | 61.2903 | |
| gduggal-snapplat | INDEL | I1_5 | map_l125_m1_e0 | * | 84.1534 | 79.1566 | 89.8236 | 93.4173 | 657 | 173 | 662 | 75 | 4 | 5.3333 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m2_e0 | het | 88.5120 | 98.7928 | 80.1693 | 90.7999 | 491 | 6 | 663 | 164 | 68 | 41.4634 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 44.2731 | 30.1494 | 83.2915 | 76.5745 | 666 | 1543 | 663 | 133 | 106 | 79.6992 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002complexvar | het | 74.0091 | 59.8013 | 97.0717 | 73.7610 | 662 | 445 | 663 | 20 | 10 | 50.0000 | |
| anovak-vg | INDEL | * | map_l125_m0_e0 | * | 71.3287 | 72.2222 | 70.4570 | 90.6359 | 637 | 245 | 663 | 278 | 156 | 56.1151 | |
| anovak-vg | INDEL | D1_5 | segdup | het | 93.3306 | 94.0751 | 92.5978 | 95.1126 | 651 | 41 | 663 | 53 | 34 | 64.1509 | |
| asubramanian-gatk | INDEL | D1_5 | map_l125_m2_e0 | het | 89.8280 | 86.6492 | 93.2489 | 90.9553 | 662 | 102 | 663 | 48 | 4 | 8.3333 | |
| jpowers-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 44.3323 | 30.1494 | 83.7121 | 76.2590 | 666 | 1543 | 663 | 129 | 106 | 82.1705 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.6615 | 98.9726 | 90.7104 | 82.2631 | 867 | 9 | 664 | 68 | 63 | 92.6471 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.4696 | 97.9853 | 95.0000 | 72.7838 | 535 | 11 | 665 | 35 | 35 | 100.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 50.6602 | 37.5000 | 78.0516 | 49.9118 | 1434 | 2390 | 665 | 187 | 113 | 60.4278 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.8557 | 99.0868 | 90.9713 | 82.4616 | 868 | 8 | 665 | 66 | 62 | 93.9394 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.9234 | 99.0868 | 91.0959 | 82.4814 | 868 | 8 | 665 | 65 | 61 | 93.8462 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.0745 | 98.9726 | 91.4718 | 82.4269 | 867 | 9 | 665 | 62 | 60 | 96.7742 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 84.7544 | 73.6239 | 99.8498 | 26.3274 | 642 | 230 | 665 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | HG002compoundhet | homalt | 54.9045 | 96.9388 | 38.2979 | 70.2430 | 665 | 21 | 666 | 1073 | 874 | 81.4539 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 74.0703 | 72.3684 | 75.8542 | 64.2217 | 660 | 252 | 666 | 212 | 139 | 65.5660 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 75.3115 | 93.4534 | 63.0682 | 57.8947 | 571 | 40 | 666 | 390 | 384 | 98.4615 | |
| egarrison-hhga | INDEL | * | HG002compoundhet | homalt | 61.2199 | 97.0845 | 44.7051 | 74.4521 | 666 | 20 | 667 | 825 | 708 | 85.8182 | |
| ltrigg-rtg2 | INDEL | * | HG002compoundhet | homalt | 87.5156 | 94.1691 | 81.7402 | 67.9371 | 646 | 40 | 667 | 149 | 147 | 98.6577 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 45.3594 | 46.8085 | 43.9974 | 84.7177 | 638 | 725 | 667 | 849 | 19 | 2.2379 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 76.4847 | 93.7931 | 64.5692 | 72.8444 | 408 | 27 | 667 | 366 | 206 | 56.2842 | |
| hfeng-pmm3 | INDEL | D6_15 | HG002compoundhet | het | 81.8478 | 78.8551 | 85.0765 | 66.7091 | 675 | 181 | 667 | 117 | 113 | 96.5812 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.8775 | 93.1174 | 92.6389 | 73.8277 | 690 | 51 | 667 | 53 | 47 | 88.6792 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.4810 | 98.9726 | 90.3794 | 82.0961 | 867 | 9 | 667 | 71 | 69 | 97.1831 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m2_e0 | * | 90.5545 | 87.2870 | 94.0762 | 92.0578 | 666 | 97 | 667 | 42 | 5 | 11.9048 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 87.2466 | 79.7847 | 96.2482 | 67.1252 | 667 | 169 | 667 | 26 | 23 | 88.4615 | |
| raldana-dualsentieon | INDEL | D6_15 | HG002compoundhet | het | 78.4773 | 78.8551 | 78.1030 | 69.3467 | 675 | 181 | 667 | 187 | 185 | 98.9305 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m1_e0 | homalt | 94.3471 | 90.8784 | 98.0910 | 75.2992 | 538 | 54 | 668 | 13 | 12 | 92.3077 | |
| gduggal-snapplat | INDEL | * | HG002compoundhet | homalt | 27.3298 | 63.4111 | 17.4185 | 67.5742 | 435 | 251 | 668 | 3167 | 2730 | 86.2015 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 71.9347 | 56.7912 | 98.0910 | 82.9452 | 669 | 509 | 668 | 13 | 8 | 61.5385 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 77.2155 | 68.0091 | 89.3048 | 56.7130 | 2398 | 1128 | 668 | 80 | 79 | 98.7500 | |