PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74301-74350 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.1124 | 98.4570 | 99.7766 | 72.3207 | 4020 | 63 | 4020 | 9 | 6 | 66.6667 | |
| ckim-dragen | INDEL | * | HG002compoundhet | het | 96.6766 | 98.1925 | 95.2069 | 77.0708 | 4020 | 74 | 3774 | 190 | 179 | 94.2105 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002compoundhet | hetalt | 65.8129 | 49.3191 | 98.8822 | 29.8693 | 4020 | 4131 | 3450 | 39 | 30 | 76.9231 | |
| ckim-vqsr | INDEL | * | HG002compoundhet | het | 93.3882 | 98.2169 | 89.0120 | 79.6916 | 4021 | 73 | 3775 | 466 | 457 | 98.0687 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 91.0304 | 84.2624 | 98.9806 | 25.8726 | 4021 | 751 | 4078 | 42 | 35 | 83.3333 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4684 | 98.9668 | 99.9751 | 45.9140 | 4023 | 42 | 4023 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | tv | map_l150_m0_e0 | * | 97.9546 | 96.3824 | 99.5789 | 69.3400 | 4023 | 151 | 4020 | 17 | 4 | 23.5294 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.1364 | 48.1459 | 91.6819 | 62.9404 | 4025 | 4335 | 4012 | 364 | 316 | 86.8132 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.1364 | 48.1459 | 91.6819 | 62.9404 | 4025 | 4335 | 4012 | 364 | 316 | 86.8132 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 32.4738 | 29.1984 | 36.5769 | 50.5553 | 4025 | 9760 | 4022 | 6974 | 6937 | 99.4695 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.0485 | 48.1459 | 91.3123 | 63.3492 | 4025 | 4335 | 4015 | 382 | 317 | 82.9843 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.0485 | 48.1459 | 91.3123 | 63.3492 | 4025 | 4335 | 4015 | 382 | 317 | 82.9843 | |
| gduggal-bwafb | SNP | * | map_l150_m0_e0 | homalt | 99.1750 | 98.4837 | 99.8760 | 78.3354 | 4027 | 62 | 4027 | 5 | 4 | 80.0000 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.0561 | 98.7981 | 99.3154 | 40.3094 | 4028 | 49 | 4062 | 28 | 17 | 60.7143 | |
| astatham-gatk | INDEL | * | HG002compoundhet | het | 93.2853 | 98.3879 | 88.6859 | 79.4067 | 4028 | 66 | 3786 | 483 | 475 | 98.3437 | |
| bgallagher-sentieon | INDEL | * | HG002compoundhet | het | 92.6752 | 98.3879 | 87.5896 | 79.6233 | 4028 | 66 | 3790 | 537 | 528 | 98.3240 | |
| dgrover-gatk | INDEL | * | HG002compoundhet | het | 93.5069 | 98.4612 | 89.0273 | 79.7555 | 4031 | 63 | 3789 | 467 | 459 | 98.2869 | |
| rpoplin-dv42 | SNP | tv | map_l150_m2_e0 | homalt | 99.2738 | 98.7754 | 99.7773 | 74.0315 | 4033 | 50 | 4033 | 9 | 9 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | * | hetalt | 65.7378 | 49.3394 | 98.4629 | 43.6387 | 4033 | 4141 | 3459 | 54 | 41 | 75.9259 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 90.3941 | 93.8999 | 87.1407 | 79.9532 | 4033 | 262 | 4032 | 595 | 11 | 1.8487 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.8427 | 93.9232 | 97.8424 | 72.3914 | 4034 | 261 | 4036 | 89 | 6 | 6.7416 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3962 | 98.9698 | 99.8262 | 37.7685 | 4035 | 42 | 4020 | 7 | 2 | 28.5714 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3721 | 99.2620 | 99.4824 | 48.6065 | 4035 | 30 | 4036 | 21 | 4 | 19.0476 | |
| astatham-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.3231 | 98.8244 | 99.8268 | 71.2518 | 4035 | 48 | 4035 | 7 | 5 | 71.4286 | |
| ckim-gatk | INDEL | * | HG002compoundhet | het | 93.4586 | 98.5589 | 88.8602 | 79.6039 | 4035 | 59 | 3789 | 475 | 465 | 97.8947 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.7525 | 97.3468 | 76.6261 | 86.4563 | 4036 | 110 | 4088 | 1247 | 102 | 8.1796 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6545 | 99.3358 | 99.9752 | 49.3288 | 4038 | 27 | 4038 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0218 | 97.3951 | 98.6566 | 81.2038 | 4038 | 108 | 4039 | 55 | 32 | 58.1818 | |
| mlin-fermikit | SNP | * | map_l150_m0_e0 | * | 47.5288 | 33.5688 | 81.3658 | 64.0159 | 4039 | 7993 | 4039 | 925 | 818 | 88.4324 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.8920 | 97.4192 | 92.4926 | 87.6892 | 4039 | 107 | 4078 | 331 | 106 | 32.0242 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 80.8933 | 68.5041 | 98.7531 | 57.3514 | 4039 | 1857 | 4039 | 51 | 49 | 96.0784 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 80.8933 | 68.5041 | 98.7531 | 57.3514 | 4039 | 1857 | 4039 | 51 | 49 | 96.0784 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 81.2908 | 70.4641 | 96.0486 | 65.7173 | 4039 | 1693 | 4035 | 166 | 29 | 17.4699 | |
| gduggal-bwavard | SNP | tv | map_l150_m2_e1 | homalt | 98.7655 | 97.7504 | 99.8019 | 73.3170 | 4041 | 93 | 4031 | 8 | 6 | 75.0000 | |
| gduggal-bwafb | SNP | tv | map_l150_m2_e0 | homalt | 99.4097 | 98.9958 | 99.8271 | 75.2959 | 4042 | 41 | 4042 | 7 | 5 | 71.4286 | |
| dgrover-gatk | SNP | * | map_l150_m0_e0 | homalt | 99.3242 | 98.8506 | 99.8025 | 74.1808 | 4042 | 47 | 4042 | 8 | 6 | 75.0000 | |
| dgrover-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.4343 | 99.0203 | 99.8518 | 71.6158 | 4043 | 40 | 4043 | 6 | 4 | 66.6667 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7289 | 99.5326 | 99.9260 | 41.7636 | 4046 | 19 | 4052 | 3 | 3 | 100.0000 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6434 | 99.5326 | 99.7544 | 48.4618 | 4046 | 19 | 4061 | 10 | 1 | 10.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5939 | 99.2396 | 99.9506 | 44.1181 | 4046 | 31 | 4050 | 2 | 1 | 50.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 81.2086 | 91.0256 | 73.3029 | 53.9573 | 4047 | 399 | 4017 | 1463 | 1454 | 99.3848 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 74.2193 | 59.3086 | 99.1453 | 28.8754 | 4049 | 2778 | 3712 | 32 | 27 | 84.3750 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6310 | 99.3377 | 99.9260 | 40.6323 | 4050 | 27 | 4053 | 3 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5317 | 95.5639 | 99.5821 | 76.9923 | 4050 | 188 | 4051 | 17 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8275 | 99.6556 | 100.0000 | 44.5296 | 4051 | 14 | 4051 | 0 | 0 | ||
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7660 | 99.6556 | 99.8767 | 49.4516 | 4051 | 14 | 4051 | 5 | 1 | 20.0000 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.7332 | 99.6556 | 97.8277 | 50.1744 | 4051 | 14 | 4053 | 90 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.2893 | 99.6556 | 98.9258 | 48.4715 | 4051 | 14 | 4052 | 44 | 5 | 11.3636 | |
| ckim-dragen | SNP | * | map_l150_m0_e0 | homalt | 99.3015 | 99.0707 | 99.5334 | 70.2317 | 4051 | 38 | 4053 | 19 | 16 | 84.2105 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7906 | 99.6556 | 99.9260 | 49.2362 | 4051 | 14 | 4051 | 3 | 1 | 33.3333 | |