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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69801-69850 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 91.4107 | 85.7327 | 97.8942 | 35.5826 | 3984 | 663 | 1813 | 39 | 39 | 100.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.7732 | 98.8531 | 98.6935 | 66.7872 | 1810 | 21 | 1813 | 24 | 0 | 0.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2066 | 99.0169 | 99.3969 | 52.5864 | 1813 | 18 | 1813 | 11 | 2 | 18.1818 | |
| ciseli-custom | INDEL | * | map_siren | homalt | 73.0250 | 68.4746 | 78.2234 | 81.7056 | 1818 | 837 | 1814 | 505 | 387 | 76.6337 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m1_e0 | * | 98.5318 | 97.9978 | 99.0715 | 81.6035 | 1811 | 37 | 1814 | 17 | 5 | 29.4118 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.1532 | 99.1262 | 99.1803 | 52.5045 | 1815 | 16 | 1815 | 15 | 2 | 13.3333 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 46.1795 | 45.3564 | 47.0329 | 65.4087 | 1807 | 2177 | 1815 | 2044 | 1056 | 51.6634 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2074 | 99.1262 | 99.2888 | 51.5248 | 1815 | 16 | 1815 | 13 | 1 | 7.6923 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m2_e1 | * | 90.6674 | 93.3333 | 88.1496 | 86.2733 | 1302 | 93 | 1815 | 244 | 114 | 46.7213 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.2208 | 95.9411 | 98.5350 | 66.0589 | 1891 | 80 | 1816 | 27 | 9 | 33.3333 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.2208 | 95.9411 | 98.5350 | 66.0589 | 1891 | 80 | 1816 | 27 | 9 | 33.3333 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.4782 | 96.3415 | 98.6420 | 70.2969 | 1817 | 69 | 1816 | 25 | 18 | 72.0000 | |
| jpowers-varprowl | INDEL | D1_5 | HG002compoundhet | * | 18.0756 | 14.9571 | 22.8370 | 69.8480 | 1830 | 10405 | 1816 | 6136 | 5980 | 97.4576 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.1952 | 95.9411 | 98.4824 | 66.8225 | 1891 | 80 | 1817 | 28 | 10 | 35.7143 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.1952 | 95.9411 | 98.4824 | 66.8225 | 1891 | 80 | 1817 | 28 | 10 | 35.7143 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0461 | 99.2354 | 98.8575 | 51.9477 | 1817 | 14 | 1817 | 21 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 83.2650 | 74.7927 | 93.9018 | 56.7791 | 1804 | 608 | 1817 | 118 | 62 | 52.5424 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 80.0445 | 73.9527 | 87.2300 | 54.9427 | 1783 | 628 | 1817 | 266 | 219 | 82.3308 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2629 | 99.2900 | 99.2358 | 50.5266 | 1818 | 13 | 1818 | 14 | 0 | 0.0000 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 74.9889 | 82.2562 | 68.9015 | 82.7699 | 1451 | 313 | 1819 | 821 | 334 | 40.6821 | |
| jpowers-varprowl | SNP | tv | map_l250_m2_e0 | het | 92.5700 | 93.7629 | 91.4070 | 92.4193 | 1819 | 121 | 1819 | 171 | 34 | 19.8830 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 53.5399 | 39.1005 | 84.8881 | 55.0336 | 1817 | 2830 | 1820 | 324 | 282 | 87.0370 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 82.2315 | 84.9860 | 79.6499 | 75.4433 | 1817 | 321 | 1820 | 465 | 124 | 26.6667 | |
| 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 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 96.9120 | 98.3766 | 95.4903 | 87.8504 | 1818 | 30 | 1821 | 86 | 8 | 9.3023 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 39.8947 | 28.8609 | 64.5870 | 56.5465 | 1994 | 4915 | 1822 | 999 | 788 | 78.8789 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.0965 | 99.3446 | 93.0541 | 69.3007 | 1819 | 12 | 1822 | 136 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4269 | 99.0751 | 99.7811 | 30.6904 | 1714 | 16 | 1823 | 4 | 3 | 75.0000 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0362 | 99.2900 | 96.8136 | 69.3472 | 1818 | 13 | 1823 | 60 | 2 | 3.3333 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.1298 | 99.5085 | 98.7541 | 58.9047 | 1822 | 9 | 1823 | 23 | 1 | 4.3478 | |
| jli-custom | INDEL | D1_5 | map_l100_m1_e0 | * | 98.6735 | 98.5931 | 98.7541 | 82.3788 | 1822 | 26 | 1823 | 23 | 8 | 34.7826 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.4273 | 99.5631 | 99.2919 | 54.6106 | 1823 | 8 | 1823 | 13 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 52.7219 | 35.8609 | 99.5087 | 32.6223 | 1835 | 3282 | 1823 | 9 | 8 | 88.8889 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 92.8865 | 96.0317 | 89.9408 | 90.7338 | 1694 | 70 | 1824 | 204 | 45 | 22.0588 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 95.2221 | 98.5390 | 92.1212 | 86.6783 | 1821 | 27 | 1824 | 156 | 11 | 7.0513 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 81.8829 | 73.3939 | 92.5926 | 62.2269 | 1131 | 410 | 1825 | 146 | 139 | 95.2055 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.3027 | 71.9181 | 98.9696 | 44.4076 | 1826 | 713 | 1825 | 19 | 17 | 89.4737 | |
| gduggal-bwaplat | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.3459 | 90.0692 | 96.8700 | 86.2669 | 1823 | 201 | 1826 | 59 | 4 | 6.7797 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m1_e0 | * | 98.7016 | 98.6472 | 98.7561 | 82.9460 | 1823 | 25 | 1826 | 23 | 9 | 39.1304 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.6997 | 99.7269 | 99.6725 | 54.7543 | 1826 | 5 | 1826 | 6 | 1 | 16.6667 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.4011 | 99.6723 | 99.1314 | 60.3701 | 1825 | 6 | 1826 | 16 | 1 | 6.2500 | |
| gduggal-snapplat | SNP | tv | map_l125_m0_e0 | homalt | 90.2668 | 82.2602 | 100.0000 | 75.6753 | 1827 | 394 | 1828 | 0 | 0 | ||
| dgrover-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 98.8105 | 98.8095 | 98.8115 | 84.8192 | 1826 | 22 | 1829 | 22 | 5 | 22.7273 | |
| gduggal-bwaplat | SNP | * | map_l250_m1_e0 | het | 55.4141 | 38.4227 | 99.3482 | 97.7302 | 1827 | 2928 | 1829 | 12 | 3 | 25.0000 | |
| asubramanian-gatk | INDEL | * | map_l125_m1_e0 | * | 91.1206 | 86.6635 | 96.0609 | 96.9394 | 1826 | 281 | 1829 | 75 | 8 | 10.6667 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 96.9768 | 98.8095 | 95.2108 | 87.6725 | 1826 | 22 | 1829 | 92 | 8 | 8.6957 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 93.7592 | 93.1507 | 94.3756 | 73.2357 | 1836 | 135 | 1829 | 109 | 67 | 61.4679 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 93.7592 | 93.1507 | 94.3756 | 73.2357 | 1836 | 135 | 1829 | 109 | 67 | 61.4679 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.4767 | 93.8476 | 95.1143 | 74.6842 | 2044 | 134 | 1830 | 94 | 84 | 89.3617 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.5376 | 99.8908 | 99.1870 | 59.6192 | 1829 | 2 | 1830 | 15 | 1 | 6.6667 | |