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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68501-68550 / 86044 show all | |||||||||||||||
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7268 | 99.5907 | 99.8632 | 46.2500 | 1460 | 6 | 1460 | 2 | 1 | 50.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7146 | 97.7227 | 99.7268 | 32.9363 | 1459 | 34 | 1460 | 4 | 4 | 100.0000 | |
| raldana-dualsentieon | SNP | * | map_l250_m0_e0 | het | 96.7528 | 96.9456 | 96.5608 | 92.4896 | 1460 | 46 | 1460 | 52 | 1 | 1.9231 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.8218 | 96.4958 | 99.1848 | 75.0551 | 1487 | 54 | 1460 | 12 | 6 | 50.0000 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e0 | homalt | 91.2669 | 85.0119 | 98.5155 | 76.6062 | 1072 | 189 | 1460 | 22 | 18 | 81.8182 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.4858 | 93.1258 | 79.0043 | 75.2743 | 1436 | 106 | 1460 | 388 | 46 | 11.8557 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7270 | 99.6589 | 99.7951 | 46.6278 | 1461 | 5 | 1461 | 3 | 3 | 100.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 55.0977 | 41.6888 | 81.2222 | 64.9260 | 1570 | 2196 | 1462 | 338 | 247 | 73.0769 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 55.0977 | 41.6888 | 81.2222 | 64.9260 | 1570 | 2196 | 1462 | 338 | 247 | 73.0769 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.8634 | 99.7271 | 100.0000 | 46.4273 | 1462 | 4 | 1462 | 0 | 0 | ||
| hfeng-pmm1 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.0879 | 96.4380 | 99.7952 | 66.9971 | 1462 | 54 | 1462 | 3 | 1 | 33.3333 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8482 | 97.7227 | 100.0000 | 32.9973 | 1459 | 34 | 1462 | 0 | 0 | ||
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7481 | 97.7227 | 99.7952 | 31.6698 | 1459 | 34 | 1462 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | map_l250_m1_e0 | het | 89.4463 | 81.8131 | 98.6505 | 91.5618 | 1462 | 325 | 1462 | 20 | 3 | 15.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.0221 | 96.4380 | 99.6592 | 65.6762 | 1462 | 54 | 1462 | 5 | 2 | 40.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.8634 | 99.7271 | 100.0000 | 43.1128 | 1462 | 4 | 1462 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 69.8019 | 55.0659 | 95.3064 | 79.2366 | 1462 | 1193 | 1462 | 72 | 30 | 41.6667 | |
| gduggal-snapfb | INDEL | * | segdup | het | 92.4787 | 90.9277 | 94.0836 | 94.1056 | 1333 | 133 | 1463 | 92 | 26 | 28.2609 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.9462 | 89.6097 | 75.4902 | 79.0668 | 1630 | 189 | 1463 | 475 | 410 | 86.3158 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 81.9462 | 89.6097 | 75.4902 | 79.0668 | 1630 | 189 | 1463 | 475 | 410 | 86.3158 | |
| mlin-fermikit | INDEL | I16_PLUS | * | homalt | 93.7946 | 93.2095 | 94.3871 | 67.1262 | 1455 | 106 | 1463 | 87 | 84 | 96.5517 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.5516 | 99.7271 | 97.4035 | 50.4781 | 1462 | 4 | 1463 | 39 | 31 | 79.4872 | |
| ghariani-varprowl | SNP | * | map_l250_m0_e0 | het | 91.3804 | 97.1448 | 86.2618 | 95.0573 | 1463 | 43 | 1463 | 233 | 27 | 11.5880 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.8976 | 99.7954 | 100.0000 | 42.9630 | 1463 | 3 | 1463 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.7880 | 95.3926 | 96.1867 | 75.7339 | 1470 | 71 | 1463 | 58 | 53 | 91.3793 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | het | 97.3404 | 97.2112 | 97.4700 | 92.1200 | 1464 | 42 | 1464 | 38 | 23 | 60.5263 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9317 | 99.8636 | 100.0000 | 45.3935 | 1464 | 2 | 1464 | 0 | 0 | ||
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9317 | 99.8636 | 100.0000 | 43.0793 | 1464 | 2 | 1464 | 0 | 0 | ||
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9317 | 99.8636 | 100.0000 | 43.1014 | 1464 | 2 | 1464 | 0 | 0 | ||
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9318 | 99.9318 | 99.9318 | 43.0237 | 1465 | 1 | 1465 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.0224 | 96.8202 | 99.2547 | 76.2357 | 1492 | 49 | 1465 | 11 | 4 | 36.3636 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9659 | 99.9318 | 100.0000 | 45.7608 | 1465 | 1 | 1465 | 0 | 0 | ||
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9659 | 99.9318 | 100.0000 | 43.3050 | 1465 | 1 | 1465 | 0 | 0 | ||
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9659 | 99.9318 | 100.0000 | 43.5670 | 1465 | 1 | 1465 | 0 | 0 | ||
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9659 | 99.9318 | 100.0000 | 43.8267 | 1465 | 1 | 1465 | 0 | 0 | ||
| mlin-fermikit | SNP | ti | map_l150_m0_e0 | het | 44.5289 | 28.7424 | 98.7862 | 66.7936 | 1465 | 3632 | 1465 | 18 | 3 | 16.6667 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 78.4779 | 66.1838 | 96.3816 | 73.7433 | 1462 | 747 | 1465 | 55 | 51 | 92.7273 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.8901 | 95.6863 | 98.1246 | 84.9192 | 1464 | 66 | 1465 | 28 | 18 | 64.2857 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.8901 | 95.6863 | 98.1246 | 84.9192 | 1464 | 66 | 1465 | 28 | 18 | 64.2857 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6198 | 95.9122 | 99.3894 | 60.1406 | 1267 | 54 | 1465 | 9 | 5 | 55.5556 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9659 | 99.9318 | 100.0000 | 42.9072 | 1465 | 1 | 1465 | 0 | 0 | ||
| dgrover-gatk | SNP | * | map_l250_m0_e0 | het | 97.2149 | 97.3440 | 97.0861 | 94.4551 | 1466 | 40 | 1466 | 44 | 7 | 15.9091 | |
| jlack-gatk | SNP | * | map_l250_m0_e0 | het | 89.1456 | 97.3440 | 82.2210 | 96.2201 | 1466 | 40 | 1466 | 317 | 23 | 7.2555 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.7538 | 99.9318 | 97.6032 | 55.4303 | 1465 | 1 | 1466 | 36 | 19 | 52.7778 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.9871 | 99.9318 | 98.0602 | 53.4268 | 1465 | 1 | 1466 | 29 | 19 | 65.5172 | |
| gduggal-snapfb | SNP | ti | map_l250_m1_e0 | homalt | 95.2567 | 91.2259 | 99.6601 | 92.2128 | 1466 | 141 | 1466 | 5 | 4 | 80.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.0193 | 98.0576 | 100.0000 | 32.2402 | 1464 | 29 | 1467 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.1550 | 96.9500 | 99.3902 | 75.7157 | 1494 | 47 | 1467 | 9 | 4 | 44.4444 | |
| hfeng-pmm3 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.2585 | 96.7678 | 99.7959 | 68.4820 | 1467 | 49 | 1467 | 3 | 1 | 33.3333 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 88.0509 | 79.0340 | 99.3902 | 32.6949 | 1440 | 382 | 1467 | 9 | 8 | 88.8889 | |