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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23201-23250 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6877 | 98.2028 | 99.1775 | 66.2939 | 3497 | 64 | 3497 | 29 | 23 | 79.3103 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 81.0867 | 68.5777 | 99.1772 | 58.7467 | 1567 | 718 | 1567 | 13 | 5 | 38.4615 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l150_m2_e0 | homalt | 99.3814 | 99.5868 | 99.1770 | 86.5150 | 241 | 1 | 241 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e0 | het | 97.8610 | 96.5795 | 99.1770 | 86.8328 | 480 | 17 | 482 | 4 | 0 | 0.0000 | |
| anovak-vg | SNP | ti | HG002complexvar | homalt | 98.2762 | 97.3918 | 99.1768 | 17.9619 | 188418 | 5046 | 185045 | 1536 | 1381 | 89.9089 | |
| anovak-vg | SNP | ti | func_cds | * | 98.6277 | 98.0852 | 99.1763 | 27.7317 | 13523 | 264 | 13486 | 112 | 79 | 70.5357 | |
| bgallagher-sentieon | INDEL | * | map_siren | homalt | 99.3618 | 99.5480 | 99.1763 | 81.3504 | 2643 | 12 | 2649 | 22 | 13 | 59.0909 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.8986 | 98.6225 | 99.1763 | 52.8592 | 2649 | 37 | 2649 | 22 | 1 | 4.5455 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.3467 | 97.5309 | 99.1763 | 83.8090 | 1264 | 32 | 1204 | 10 | 1 | 10.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.3995 | 99.6241 | 99.1760 | 40.3752 | 1325 | 5 | 1324 | 11 | 11 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | * | het | 98.7584 | 98.3444 | 99.1760 | 75.9243 | 2673 | 45 | 2648 | 22 | 6 | 27.2727 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.5862 | 100.0000 | 99.1758 | 63.0457 | 361 | 0 | 361 | 3 | 1 | 33.3333 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.7075 | 98.2437 | 99.1757 | 52.7025 | 2685 | 48 | 2647 | 22 | 8 | 36.3636 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e0 | * | 98.5925 | 98.0163 | 99.1755 | 86.0408 | 840 | 17 | 842 | 7 | 2 | 28.5714 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4564 | 99.7391 | 99.1754 | 42.0292 | 10704 | 28 | 10704 | 89 | 2 | 2.2472 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.3410 | 99.5071 | 99.1754 | 50.3830 | 5653 | 28 | 5653 | 47 | 47 | 100.0000 | |
| ndellapenna-hhga | SNP | * | map_l250_m0_e0 | * | 97.4261 | 95.7377 | 99.1752 | 91.7964 | 2044 | 91 | 2044 | 17 | 8 | 47.0588 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.2933 | 97.4269 | 99.1752 | 74.7089 | 8898 | 235 | 8898 | 74 | 10 | 13.5135 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.2933 | 97.4269 | 99.1752 | 74.7089 | 8898 | 235 | 8898 | 74 | 10 | 13.5135 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 90.6486 | 83.4722 | 99.1749 | 87.8994 | 601 | 119 | 601 | 5 | 3 | 60.0000 | |
| jli-custom | INDEL | D6_15 | * | het | 99.0350 | 98.8958 | 99.1747 | 58.3418 | 11464 | 128 | 11416 | 95 | 84 | 88.4211 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e1 | het | 98.9954 | 98.8167 | 99.1746 | 76.0502 | 12861 | 154 | 12857 | 107 | 68 | 63.5514 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.7554 | 98.3399 | 99.1744 | 57.4612 | 10900 | 184 | 10811 | 90 | 55 | 61.1111 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.1168 | 99.0593 | 99.1743 | 78.7979 | 1053 | 10 | 1081 | 9 | 4 | 44.4444 | |
| gduggal-bwaplat | INDEL | D1_5 | * | * | 93.7723 | 88.9284 | 99.1742 | 65.9734 | 130498 | 16247 | 130430 | 1086 | 611 | 56.2615 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 76.3374 | 62.0495 | 99.1738 | 31.6467 | 2961 | 1811 | 3001 | 25 | 25 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 94.8617 | 90.9091 | 99.1736 | 77.2556 | 120 | 12 | 120 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l125_m2_e1 | * | 96.3855 | 93.7500 | 99.1736 | 88.0788 | 120 | 8 | 120 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.4748 | 95.8333 | 99.1736 | 75.2556 | 161 | 7 | 360 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 73.0080 | 57.7670 | 99.1736 | 59.2593 | 119 | 87 | 120 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 98.6916 | 98.2143 | 99.1736 | 83.4247 | 110 | 2 | 120 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l150_m1_e0 | * | 97.6874 | 96.2451 | 99.1736 | 84.0842 | 487 | 19 | 480 | 4 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.9665 | 98.7603 | 99.1736 | 69.4830 | 239 | 3 | 240 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.9326 | 91.0397 | 99.1732 | 34.1898 | 2154 | 212 | 2159 | 18 | 18 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | * | * | 96.8429 | 94.6197 | 99.1732 | 57.6142 | 6419 | 365 | 6357 | 53 | 36 | 67.9245 | |
| rpoplin-dv42 | INDEL | * | * | * | 98.9802 | 98.7882 | 99.1728 | 78.6199 | 340367 | 4175 | 340370 | 2839 | 2640 | 92.9905 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 83.0301 | 71.4070 | 99.1727 | 30.3565 | 1888 | 756 | 1918 | 16 | 11 | 68.7500 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | * | 96.2411 | 93.4780 | 99.1726 | 30.6557 | 8442 | 589 | 8390 | 70 | 63 | 90.0000 | |
| jmaeng-gatk | INDEL | * | map_siren | homalt | 99.1343 | 99.0960 | 99.1726 | 81.5411 | 2631 | 24 | 2637 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.4937 | 90.2365 | 99.1726 | 34.9981 | 1488 | 161 | 1678 | 14 | 14 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 88.1620 | 79.3519 | 99.1726 | 31.2754 | 10922 | 2842 | 2517 | 21 | 18 | 85.7143 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 81.6911 | 69.4493 | 99.1722 | 56.0007 | 2396 | 1054 | 2396 | 20 | 5 | 25.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.9882 | 96.8323 | 99.1721 | 49.4419 | 9782 | 320 | 9703 | 81 | 32 | 39.5062 | |
| jmaeng-gatk | SNP | ti | func_cds | * | 99.5302 | 99.8912 | 99.1718 | 29.3312 | 13772 | 15 | 13770 | 115 | 1 | 0.8696 | |
| jlack-gatk | SNP | tv | map_l250_m1_e0 | homalt | 98.5303 | 97.8972 | 99.1716 | 86.3357 | 838 | 18 | 838 | 7 | 5 | 71.4286 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9212 | 94.7708 | 99.1715 | 26.5340 | 4404 | 243 | 4429 | 37 | 35 | 94.5946 | |
| ckim-gatk | SNP | ti | func_cds | het | 99.5548 | 99.9412 | 99.1713 | 33.6071 | 8499 | 5 | 8497 | 71 | 1 | 1.4085 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l100_m1_e0 | * | 98.7623 | 98.3570 | 99.1711 | 82.7819 | 1317 | 22 | 1316 | 11 | 2 | 18.1818 | |
| dgrover-gatk | SNP | * | map_l150_m2_e1 | * | 99.1741 | 99.1773 | 99.1710 | 78.4616 | 31945 | 265 | 31939 | 267 | 60 | 22.4719 | |
| cchapple-custom | SNP | tv | HG002compoundhet | het | 98.8352 | 98.5020 | 99.1705 | 51.5239 | 4603 | 70 | 5978 | 50 | 33 | 66.0000 | |