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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17351-17400 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1730 | 98.8786 | 99.4691 | 69.5432 | 1499 | 17 | 1499 | 8 | 2 | 25.0000 | |
| asubramanian-gatk | SNP | * | map_l250_m2_e0 | * | 31.9242 | 19.0108 | 99.5352 | 98.3542 | 1499 | 6386 | 1499 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | ti | map_l150_m0_e0 | * | 32.0231 | 19.0688 | 99.8668 | 96.6434 | 1499 | 6362 | 1499 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.2387 | 99.0092 | 99.4691 | 88.8279 | 1499 | 15 | 1499 | 8 | 7 | 87.5000 | |
| gduggal-snapfb | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 51.9003 | 97.6253 | 35.3454 | 76.8757 | 1480 | 36 | 1499 | 2742 | 30 | 1.0941 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.1742 | 99.7330 | 91.0140 | 84.2317 | 1494 | 4 | 1499 | 148 | 98 | 66.2162 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.3013 | 96.9520 | 97.6532 | 73.8359 | 1495 | 47 | 1498 | 36 | 23 | 63.8889 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3707 | 95.9702 | 98.8127 | 71.1458 | 1548 | 65 | 1498 | 18 | 13 | 72.2222 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 69.0088 | 62.2563 | 77.4043 | 50.7888 | 1501 | 910 | 1497 | 437 | 418 | 95.6522 | |
| ckim-vqsr | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1719 | 98.7467 | 99.6008 | 69.5995 | 1497 | 19 | 1497 | 6 | 2 | 33.3333 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 86.6043 | 76.5298 | 99.7333 | 31.0028 | 3652 | 1120 | 1496 | 4 | 4 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.8031 | 99.5995 | 90.4474 | 84.6880 | 1492 | 6 | 1496 | 158 | 129 | 81.6456 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.3878 | 94.0484 | 96.7658 | 60.9497 | 1517 | 96 | 1496 | 50 | 29 | 58.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 72.9624 | 58.1711 | 97.8403 | 43.0063 | 1584 | 1139 | 1495 | 33 | 31 | 93.9394 | |
| gduggal-snapvard | SNP | ti | map_l250_m1_e0 | homalt | 96.4416 | 93.6528 | 99.4016 | 87.2532 | 1505 | 102 | 1495 | 9 | 7 | 77.7778 | |
| jmaeng-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1051 | 98.6148 | 99.6003 | 69.7196 | 1495 | 21 | 1495 | 6 | 3 | 50.0000 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 42.6981 | 81.4626 | 28.9311 | 78.7122 | 1437 | 327 | 1494 | 3670 | 76 | 2.0708 | |
| gduggal-bwafb | INDEL | * | map_l100_m0_e0 | * | 96.4693 | 95.1376 | 97.8389 | 85.1430 | 1487 | 76 | 1494 | 33 | 7 | 21.2121 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 43.6603 | 29.2554 | 86.0104 | 46.9780 | 1497 | 3620 | 1494 | 243 | 208 | 85.5967 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.9076 | 98.5488 | 99.2691 | 69.3358 | 1494 | 22 | 1494 | 11 | 2 | 18.1818 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0504 | 98.6372 | 99.4670 | 77.6637 | 1520 | 21 | 1493 | 8 | 2 | 25.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0176 | 98.6372 | 99.4008 | 77.5553 | 1520 | 21 | 1493 | 9 | 3 | 33.3333 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.8328 | 99.6662 | 100.0000 | 79.7916 | 1493 | 5 | 1493 | 0 | 0 | ||
| mlin-fermikit | SNP | * | map_l250_m2_e1 | het | 43.9700 | 28.3625 | 97.7734 | 83.3895 | 1493 | 3771 | 1493 | 34 | 1 | 2.9412 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7995 | 99.6662 | 99.9331 | 80.2093 | 1493 | 5 | 1493 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.9847 | 98.6372 | 99.3347 | 77.0324 | 1520 | 21 | 1493 | 10 | 4 | 40.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7995 | 99.6662 | 99.9331 | 79.6097 | 1493 | 5 | 1493 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1039 | 98.4828 | 99.7328 | 68.8838 | 1493 | 23 | 1493 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.8074 | 98.3509 | 99.2681 | 69.2197 | 1491 | 25 | 1492 | 11 | 2 | 18.1818 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0504 | 98.5724 | 99.5330 | 77.2638 | 1519 | 22 | 1492 | 7 | 2 | 28.5714 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7660 | 99.5995 | 99.9330 | 79.6677 | 1492 | 6 | 1492 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7660 | 99.5995 | 99.9330 | 82.3251 | 1492 | 6 | 1492 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7326 | 99.5995 | 99.8661 | 79.1457 | 1492 | 6 | 1492 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7660 | 99.5995 | 99.9330 | 82.9644 | 1492 | 6 | 1492 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7660 | 99.5995 | 99.9330 | 79.8733 | 1492 | 6 | 1492 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 43.7158 | 29.2554 | 86.4426 | 46.4806 | 1497 | 3620 | 1492 | 234 | 208 | 88.8889 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m0_e0 | * | 97.1053 | 95.5214 | 98.7426 | 78.1490 | 1493 | 70 | 1492 | 19 | 2 | 10.5263 | |
| ghariani-varprowl | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 89.0162 | 97.8232 | 81.6639 | 77.4026 | 1483 | 33 | 1492 | 335 | 22 | 6.5672 | |
| cchapple-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.6758 | 98.2850 | 99.0698 | 67.8831 | 1490 | 26 | 1491 | 14 | 1 | 7.1429 | |
| mlin-fermikit | SNP | ti | map_l250_m1_e0 | * | 47.0199 | 32.5617 | 84.5718 | 76.5901 | 1491 | 3088 | 1491 | 272 | 230 | 84.5588 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.7537 | 92.8262 | 98.8719 | 34.2209 | 1501 | 116 | 1490 | 17 | 17 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0173 | 98.5075 | 99.5324 | 77.0540 | 1518 | 23 | 1490 | 7 | 3 | 42.8571 | |
| rpoplin-dv42 | INDEL | I16_PLUS | * | homalt | 96.6889 | 95.3876 | 98.0263 | 58.4131 | 1489 | 72 | 1490 | 30 | 28 | 93.3333 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.5646 | 99.1989 | 99.9329 | 79.3662 | 1486 | 12 | 1490 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.9845 | 98.4426 | 99.5324 | 77.7099 | 1517 | 24 | 1490 | 7 | 2 | 28.5714 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6989 | 99.4660 | 99.9329 | 79.6894 | 1490 | 8 | 1490 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.2768 | 77.0823 | 97.9619 | 72.5253 | 1490 | 443 | 1490 | 31 | 29 | 93.5484 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7323 | 99.4660 | 100.0000 | 82.1364 | 1490 | 8 | 1490 | 0 | 0 | ||
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6987 | 99.3992 | 100.0000 | 81.4570 | 1489 | 9 | 1489 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.7219 | 98.3777 | 99.0685 | 77.8155 | 1516 | 25 | 1489 | 14 | 6 | 42.8571 | |