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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20351-20400 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | SNP | * | map_l100_m2_e1 | het | 98.8788 | 98.0660 | 99.7052 | 53.2399 | 45991 | 907 | 45990 | 136 | 8 | 5.8824 | |
| ckim-vqsr | SNP | ti | segdup | * | 98.8035 | 98.0652 | 99.5531 | 93.1259 | 19159 | 378 | 19157 | 86 | 7 | 8.1395 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 62.0729 | 98.0650 | 45.4073 | 82.4158 | 10592 | 209 | 10757 | 12933 | 236 | 1.8248 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.8442 | 152 | 3 | 152 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.6858 | 98.0645 | 99.3151 | 81.1856 | 152 | 3 | 145 | 1 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.9241 | 152 | 3 | 153 | 0 | 0 | ||
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.4061 | 98.0645 | 98.7500 | 82.6464 | 152 | 3 | 158 | 2 | 1 | 50.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m2_e1 | homalt | 98.4625 | 98.0645 | 98.8636 | 87.2332 | 608 | 12 | 609 | 7 | 5 | 71.4286 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.2093 | 152 | 3 | 153 | 0 | 0 | ||
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 83.4056 | 152 | 3 | 153 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.9596 | 152 | 3 | 152 | 0 | 0 | ||
| dgrover-gatk | INDEL | I1_5 | map_l125_m0_e0 | * | 98.0676 | 98.0645 | 98.0707 | 89.6815 | 304 | 6 | 305 | 6 | 2 | 33.3333 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.5740 | 152 | 3 | 153 | 0 | 0 | ||
| egarrison-hhga | INDEL | I1_5 | map_l125_m0_e0 | * | 97.9066 | 98.0645 | 97.7492 | 88.9363 | 304 | 6 | 304 | 7 | 2 | 28.5714 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.4539 | 98.0645 | 98.8464 | 84.0977 | 1368 | 27 | 1371 | 16 | 8 | 50.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.9213 | 152 | 3 | 152 | 0 | 0 | ||
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.4138 | 152 | 3 | 153 | 0 | 0 | ||
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.9667 | 98.0640 | 99.8862 | 50.8114 | 2634 | 52 | 2634 | 3 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | * | map_l150_m0_e0 | * | 98.2636 | 98.0635 | 98.4645 | 81.5621 | 11799 | 233 | 11799 | 184 | 58 | 31.5217 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e0 | het | 98.9081 | 98.0635 | 99.7675 | 53.0390 | 30029 | 593 | 30032 | 70 | 6 | 8.5714 | |
| jlack-gatk | SNP | * | map_l150_m0_e0 | * | 93.9698 | 98.0635 | 90.2042 | 86.8496 | 11799 | 233 | 11796 | 1281 | 106 | 8.2748 | |
| jlack-gatk | SNP | ti | map_l250_m2_e0 | * | 94.3425 | 98.0631 | 90.8939 | 92.7804 | 4911 | 97 | 4911 | 492 | 44 | 8.9431 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.2200 | 98.0630 | 92.5373 | 51.0491 | 2430 | 48 | 2418 | 195 | 3 | 1.5385 | |
| ltrigg-rtg1 | SNP | tv | map_l150_m2_e0 | * | 98.9030 | 98.0625 | 99.7581 | 68.2059 | 11135 | 220 | 11134 | 27 | 6 | 22.2222 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 98.8281 | 98.0620 | 99.6063 | 82.5669 | 253 | 5 | 253 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.6834 | 98.0620 | 97.3077 | 65.4714 | 253 | 5 | 253 | 7 | 7 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.3853 | 98.0620 | 98.7107 | 74.2575 | 8956 | 177 | 8958 | 117 | 19 | 16.2393 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.3853 | 98.0620 | 98.7107 | 74.2575 | 8956 | 177 | 8958 | 117 | 19 | 16.2393 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m0_e0 | homalt | 97.1860 | 98.0620 | 96.3255 | 87.0584 | 253 | 5 | 367 | 14 | 10 | 71.4286 | |
| ltrigg-rtg1 | SNP | ti | map_l100_m0_e0 | * | 98.9181 | 98.0616 | 99.7897 | 58.0234 | 21349 | 422 | 21353 | 45 | 17 | 37.7778 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.9101 | 98.0611 | 99.7739 | 42.7400 | 2630 | 52 | 2648 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.0211 | 98.0611 | 100.0000 | 42.7615 | 2630 | 52 | 2649 | 0 | 0 | ||
| raldana-dualsentieon | SNP | * | map_l150_m0_e0 | het | 97.9798 | 98.0605 | 97.8994 | 80.7841 | 7786 | 154 | 7783 | 167 | 2 | 1.1976 | |
| ndellapenna-hhga | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.4390 | 98.0603 | 98.8206 | 66.9267 | 3185 | 63 | 3184 | 38 | 10 | 26.3158 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4400 | 98.0595 | 98.8235 | 76.0788 | 758 | 15 | 756 | 9 | 1 | 11.1111 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | het | 98.0266 | 98.0590 | 97.9943 | 89.7744 | 1364 | 27 | 1368 | 28 | 4 | 14.2857 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9129 | 98.0590 | 99.7817 | 66.6211 | 3688 | 73 | 3657 | 8 | 5 | 62.5000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9129 | 98.0590 | 99.7817 | 66.6211 | 3688 | 73 | 3657 | 8 | 5 | 62.5000 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e0 | het | 98.2731 | 98.0590 | 98.4881 | 86.4620 | 1364 | 27 | 1368 | 21 | 3 | 14.2857 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.3000 | 98.0590 | 92.6920 | 44.9432 | 3587 | 71 | 3729 | 294 | 269 | 91.4966 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7047 | 98.0586 | 97.3534 | 62.7778 | 8233 | 163 | 8203 | 223 | 199 | 89.2377 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m2_e0 | het | 98.2172 | 98.0583 | 98.3766 | 90.6808 | 303 | 6 | 303 | 5 | 1 | 20.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 81.6869 | 98.0583 | 70.0000 | 59.7641 | 808 | 16 | 812 | 348 | 6 | 1.7241 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.0193 | 98.0576 | 100.0000 | 32.2402 | 1464 | 29 | 1467 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8858 | 98.0576 | 99.7281 | 33.7984 | 1464 | 29 | 1467 | 4 | 3 | 75.0000 | |
| jli-custom | SNP | * | map_l125_m0_e0 | het | 98.5516 | 98.0575 | 99.0508 | 71.6081 | 12418 | 246 | 12418 | 119 | 39 | 32.7731 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.2622 | 98.0574 | 88.9141 | 86.8298 | 2322 | 46 | 2350 | 293 | 14 | 4.7782 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.6805 | 98.0570 | 99.3119 | 64.2623 | 3028 | 60 | 3031 | 21 | 11 | 52.3810 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 67.7466 | 98.0570 | 51.7501 | 74.5351 | 3028 | 60 | 3090 | 2881 | 75 | 2.6033 | |
| jlack-gatk | INDEL | * | map_l150_m1_e0 | * | 93.5297 | 98.0568 | 89.4022 | 92.0707 | 1312 | 26 | 1316 | 156 | 9 | 5.7692 | |