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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
29851-29900 / 86044 show all | |||||||||||||||
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 93.5518 | 100.0000 | 87.8849 | 70.8431 | 1387 | 0 | 1313 | 181 | 3 | 1.6575 | |
| ckim-dragen | INDEL | I16_PLUS | HG002compoundhet | * | 93.5490 | 91.3672 | 95.8374 | 52.5778 | 1958 | 185 | 1957 | 85 | 85 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 93.5488 | 98.1667 | 89.3458 | 72.6223 | 2945 | 55 | 3346 | 399 | 43 | 10.7769 | |
| raldana-dualsentieon | INDEL | * | map_l100_m2_e1 | hetalt | 93.5484 | 87.8788 | 100.0000 | 84.6354 | 116 | 16 | 118 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I6_15 | map_l100_m1_e0 | homalt | 93.5484 | 87.8788 | 100.0000 | 86.3850 | 29 | 4 | 29 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I6_15 | map_l100_m2_e0 | homalt | 93.5484 | 87.8788 | 100.0000 | 87.7637 | 29 | 4 | 29 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I6_15 | map_l100_m2_e1 | homalt | 93.5484 | 87.8788 | 100.0000 | 88.0658 | 29 | 4 | 29 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D1_5 | map_l250_m0_e0 | het | 93.5484 | 87.8788 | 100.0000 | 93.2127 | 29 | 4 | 30 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l100_m1_e0 | homalt | 93.5484 | 87.8788 | 100.0000 | 90.0000 | 29 | 4 | 29 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l100_m2_e0 | homalt | 93.5484 | 87.8788 | 100.0000 | 90.9091 | 29 | 4 | 29 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l100_m2_e1 | homalt | 93.5484 | 87.8788 | 100.0000 | 91.1585 | 29 | 4 | 29 | 0 | 0 | ||
| jlack-gatk | SNP | ti | map_l100_m2_e0 | hetalt | 93.5484 | 96.6667 | 90.6250 | 83.5897 | 29 | 1 | 29 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.5484 | 95.0820 | 92.0635 | 90.0943 | 58 | 3 | 58 | 5 | 2 | 40.0000 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e1 | hetalt | 93.5484 | 87.8788 | 100.0000 | 87.1739 | 116 | 16 | 118 | 0 | 0 | ||
| ckim-dragen | INDEL | * | map_l100_m0_e0 | hetalt | 93.5484 | 87.8788 | 100.0000 | 90.0662 | 29 | 4 | 30 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | tech_badpromoters | het | 93.5484 | 87.8788 | 100.0000 | 81.4103 | 29 | 4 | 29 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | segdup | homalt | 93.5483 | 94.1504 | 92.9539 | 93.9028 | 338 | 21 | 343 | 26 | 18 | 69.2308 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.5466 | 97.8873 | 89.5745 | 84.0136 | 834 | 18 | 842 | 98 | 1 | 1.0204 | |
| jpowers-varprowl | INDEL | D1_5 | segdup | het | 93.5461 | 97.3988 | 89.9866 | 95.0659 | 674 | 18 | 674 | 75 | 61 | 81.3333 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 93.5454 | 91.9051 | 95.2453 | 77.4805 | 28622 | 2521 | 28425 | 1419 | 235 | 16.5610 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 93.5454 | 91.9051 | 95.2453 | 77.4805 | 28622 | 2521 | 28425 | 1419 | 235 | 16.5610 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.5449 | 90.4908 | 96.8125 | 75.4534 | 3835 | 403 | 3918 | 129 | 10 | 7.7519 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.5431 | 94.7785 | 92.3395 | 52.9259 | 10528 | 580 | 10511 | 872 | 826 | 94.7248 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.5423 | 89.2344 | 98.2872 | 66.4011 | 746 | 90 | 746 | 13 | 11 | 84.6154 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.5418 | 98.5606 | 89.0094 | 85.1964 | 4177 | 61 | 4187 | 517 | 55 | 10.6383 | |
| cchapple-custom | INDEL | * | map_l250_m2_e0 | * | 93.5413 | 95.4683 | 91.6905 | 95.6635 | 316 | 15 | 320 | 29 | 3 | 10.3448 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.5412 | 99.5261 | 88.2353 | 68.7254 | 210 | 1 | 210 | 28 | 27 | 96.4286 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.5407 | 95.2841 | 91.8599 | 48.3177 | 9072 | 449 | 9073 | 804 | 405 | 50.3731 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 93.5407 | 88.2533 | 99.5021 | 62.9815 | 9782 | 1302 | 9792 | 49 | 16 | 32.6531 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 93.5398 | 88.1295 | 99.6579 | 61.6024 | 15138 | 2039 | 15150 | 52 | 17 | 32.6923 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 93.5396 | 91.9540 | 95.1807 | 99.8965 | 80 | 7 | 79 | 4 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 93.5396 | 91.9540 | 95.1807 | 99.8985 | 80 | 7 | 79 | 4 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 93.5396 | 91.9540 | 95.1807 | 99.8945 | 80 | 7 | 79 | 4 | 0 | 0.0000 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.5393 | 89.0244 | 98.5366 | 84.9486 | 219 | 27 | 202 | 3 | 1 | 33.3333 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 93.5361 | 96.8504 | 90.4412 | 37.6147 | 123 | 4 | 123 | 13 | 12 | 92.3077 | |
| gduggal-bwavard | INDEL | D1_5 | HG002complexvar | * | 93.5349 | 92.9971 | 94.0789 | 54.5678 | 30424 | 2291 | 28886 | 1818 | 1258 | 69.1969 | |
| jlack-gatk | SNP | * | map_l250_m2_e1 | * | 93.5343 | 97.8966 | 89.5442 | 92.9358 | 7819 | 168 | 7819 | 913 | 69 | 7.5575 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 93.5326 | 87.8942 | 99.9440 | 58.7524 | 5351 | 737 | 5353 | 3 | 1 | 33.3333 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.5323 | 89.9522 | 97.4093 | 74.9025 | 188 | 21 | 188 | 5 | 4 | 80.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 93.5311 | 89.0796 | 98.4509 | 45.0331 | 571 | 70 | 572 | 9 | 8 | 88.8889 | |
| jlack-gatk | SNP | * | map_l150_m1_e0 | het | 93.5301 | 98.8559 | 88.7489 | 85.6678 | 19095 | 221 | 19089 | 2420 | 175 | 7.2314 | |
| jlack-gatk | INDEL | * | map_l150_m1_e0 | * | 93.5297 | 98.0568 | 89.4022 | 92.0707 | 1312 | 26 | 1316 | 156 | 9 | 5.7692 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.5294 | 89.3258 | 98.1481 | 70.3839 | 159 | 19 | 159 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | SNP | * | map_l125_m0_e0 | * | 93.5292 | 97.4826 | 89.8840 | 82.4074 | 18897 | 488 | 18668 | 2101 | 98 | 4.6645 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.5263 | 90.1554 | 97.1591 | 89.2157 | 348 | 38 | 342 | 10 | 1 | 10.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.5261 | 91.8816 | 95.2305 | 60.9680 | 1211 | 107 | 1198 | 60 | 58 | 96.6667 | |
| egarrison-hhga | INDEL | D6_15 | map_l125_m0_e0 | * | 93.5245 | 91.4894 | 95.6522 | 92.2166 | 43 | 4 | 44 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | segdup | het | 93.5227 | 98.8439 | 88.7451 | 96.2758 | 684 | 8 | 686 | 87 | 3 | 3.4483 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.5222 | 92.4891 | 94.5785 | 50.7408 | 2549 | 207 | 2547 | 146 | 141 | 96.5753 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.5214 | 97.8947 | 89.5221 | 87.3282 | 651 | 14 | 487 | 57 | 50 | 87.7193 | |