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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22851-22900 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | * | * | hetalt | 96.7703 | 93.7869 | 99.9498 | 57.3944 | 23669 | 1568 | 23894 | 12 | 10 | 83.3333 | |
| raldana-dualsentieon | INDEL | I16_PLUS | * | * | 96.7701 | 95.1388 | 98.4583 | 67.0904 | 6067 | 310 | 6067 | 95 | 85 | 89.4737 | |
| 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 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.7691 | 94.9258 | 98.6854 | 40.6471 | 5631 | 301 | 5630 | 75 | 56 | 74.6667 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.7688 | 94.2040 | 99.4772 | 35.3452 | 1219 | 75 | 1332 | 7 | 7 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.7687 | 94.9675 | 98.6395 | 64.7059 | 585 | 31 | 580 | 8 | 8 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.7679 | 94.4049 | 99.2523 | 24.5186 | 4505 | 267 | 4513 | 34 | 33 | 97.0588 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.7657 | 94.3750 | 99.2806 | 89.2830 | 151 | 9 | 138 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.7656 | 94.6334 | 98.9961 | 51.3619 | 16893 | 958 | 17059 | 173 | 13 | 7.5145 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.7654 | 96.6355 | 96.8956 | 63.2180 | 3102 | 108 | 3090 | 99 | 94 | 94.9495 | |
| jli-custom | INDEL | I1_5 | * | hetalt | 96.7648 | 93.7740 | 99.9527 | 62.3212 | 10498 | 697 | 10559 | 5 | 5 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | map_siren | het | 96.7640 | 98.4533 | 95.1317 | 84.9119 | 1655 | 26 | 1661 | 85 | 5 | 5.8824 | |
| asubramanian-gatk | INDEL | I6_15 | * | * | 96.7639 | 95.5082 | 98.0531 | 53.5929 | 23708 | 1115 | 23721 | 471 | 428 | 90.8705 | |
| jli-custom | SNP | ti | map_l250_m0_e0 | het | 96.7636 | 94.4325 | 99.2126 | 90.7809 | 882 | 52 | 882 | 7 | 5 | 71.4286 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.7631 | 99.4231 | 94.2417 | 48.2590 | 3964 | 23 | 3977 | 243 | 84 | 34.5679 | |
| ltrigg-rtg2 | SNP | tv | map_l250_m2_e0 | * | 96.7626 | 93.8584 | 99.8522 | 79.6388 | 2705 | 177 | 2702 | 4 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.7625 | 97.5758 | 95.9627 | 75.9522 | 322 | 8 | 309 | 13 | 7 | 53.8462 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.7619 | 98.0695 | 95.4887 | 59.2649 | 254 | 5 | 254 | 12 | 10 | 83.3333 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.7618 | 93.7850 | 99.9338 | 39.2110 | 1509 | 100 | 1509 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 96.7615 | 93.9048 | 99.7976 | 61.1635 | 493 | 32 | 493 | 1 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.7613 | 96.7656 | 96.7570 | 71.4697 | 1825 | 61 | 1820 | 61 | 57 | 93.4426 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.7604 | 97.5124 | 96.0199 | 87.0988 | 196 | 5 | 193 | 8 | 1 | 12.5000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | HG002compoundhet | hetalt | 96.7604 | 93.7241 | 100.0000 | 26.3804 | 1807 | 121 | 1920 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.7603 | 96.7298 | 96.7909 | 69.6486 | 3934 | 133 | 3921 | 130 | 111 | 85.3846 | |
| eyeh-varpipe | INDEL | I1_5 | map_l250_m2_e0 | het | 96.7603 | 96.9697 | 96.5517 | 94.2829 | 64 | 2 | 112 | 4 | 3 | 75.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l250_m2_e1 | het | 96.7603 | 96.9697 | 96.5517 | 94.4391 | 64 | 2 | 112 | 4 | 3 | 75.0000 | |
| jpowers-varprowl | SNP | ti | map_l125_m0_e0 | * | 96.7602 | 95.9489 | 97.5853 | 79.1496 | 12245 | 517 | 12245 | 303 | 110 | 36.3036 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.7592 | 96.2430 | 97.2808 | 87.7639 | 2075 | 81 | 2075 | 58 | 37 | 63.7931 | |
| ckim-dragen | INDEL | D1_5 | HG002compoundhet | hetalt | 96.7587 | 94.0877 | 99.5857 | 56.9377 | 9612 | 604 | 9615 | 40 | 40 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m0_e0 | * | 96.7585 | 94.6712 | 98.9399 | 82.0279 | 835 | 47 | 840 | 9 | 1 | 11.1111 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7581 | 95.3172 | 98.2432 | 76.2972 | 631 | 31 | 727 | 13 | 8 | 61.5385 | |
| ghariani-varprowl | SNP | tv | map_l125_m2_e0 | het | 96.7579 | 99.1764 | 94.4546 | 80.4692 | 10356 | 86 | 10356 | 608 | 93 | 15.2961 | |
| jlack-gatk | SNP | ti | map_l125_m2_e0 | * | 96.7576 | 98.8796 | 94.7247 | 79.7203 | 29919 | 339 | 29915 | 1666 | 151 | 9.0636 | |
| raldana-dualsentieon | SNP | ti | map_l250_m0_e0 | het | 96.7570 | 97.4304 | 96.0929 | 92.6538 | 910 | 24 | 910 | 37 | 0 | 0.0000 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.7565 | 97.0533 | 96.4614 | 41.7715 | 2075 | 63 | 2099 | 77 | 36 | 46.7532 | |
| gduggal-bwafb | INDEL | I1_5 | map_l150_m2_e1 | * | 96.7557 | 95.4802 | 98.0658 | 89.8148 | 507 | 24 | 507 | 10 | 2 | 20.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 96.7552 | 93.7143 | 100.0000 | 65.3445 | 164 | 11 | 166 | 0 | 0 | ||
| jpowers-varprowl | SNP | tv | map_l150_m2_e0 | * | 96.7549 | 96.6270 | 96.8830 | 81.7123 | 10972 | 383 | 10972 | 353 | 92 | 26.0623 | |
| raldana-dualsentieon | INDEL | D16_PLUS | * | het | 96.7544 | 97.2143 | 96.2988 | 74.5638 | 3071 | 88 | 2836 | 109 | 82 | 75.2294 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.7542 | 99.0148 | 94.5946 | 84.0288 | 603 | 6 | 525 | 30 | 27 | 90.0000 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.7532 | 98.0263 | 95.5128 | 90.8612 | 149 | 3 | 149 | 7 | 5 | 71.4286 | |
| raldana-dualsentieon | SNP | * | map_l250_m0_e0 | het | 96.7528 | 96.9456 | 96.5608 | 92.4896 | 1460 | 46 | 1460 | 52 | 1 | 1.9231 | |
| eyeh-varpipe | SNP | tv | map_l125_m1_e0 | het | 96.7521 | 99.7334 | 93.9440 | 75.6347 | 10099 | 27 | 9990 | 644 | 13 | 2.0186 | |
| egarrison-hhga | INDEL | I6_15 | HG002complexvar | het | 96.7518 | 94.9894 | 98.5809 | 56.5929 | 2237 | 118 | 2223 | 32 | 9 | 28.1250 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 96.7509 | 94.3662 | 99.2593 | 43.0380 | 134 | 8 | 134 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | SNP | tv | map_l100_m0_e0 | * | 96.7509 | 96.7160 | 96.7858 | 76.5215 | 10720 | 364 | 10720 | 356 | 89 | 25.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m2_e1 | homalt | 96.7506 | 95.0980 | 98.4615 | 83.4746 | 194 | 10 | 192 | 3 | 1 | 33.3333 | |
| mlin-fermikit | INDEL | I6_15 | segdup | homalt | 96.7505 | 95.7447 | 97.7778 | 90.9820 | 45 | 2 | 44 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.7502 | 96.6355 | 96.8652 | 63.0530 | 3102 | 108 | 3090 | 100 | 94 | 94.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.7502 | 94.8052 | 98.7768 | 42.3619 | 365 | 20 | 969 | 12 | 7 | 58.3333 | |