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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
31501-31550 / 86044 show all | |||||||||||||||
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 73.5901 | 72.3684 | 74.8538 | 88.1906 | 110 | 42 | 128 | 43 | 3 | 6.9767 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 16.5740 | 9.2050 | 83.0918 | 78.3246 | 110 | 1085 | 172 | 35 | 24 | 68.5714 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e0 | homalt | 96.4912 | 95.6522 | 97.3451 | 95.5424 | 110 | 5 | 110 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D1_5 | map_l250_m1_e0 | het | 97.3451 | 99.0991 | 95.6522 | 96.1513 | 110 | 1 | 110 | 5 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_siren | hetalt | 98.6425 | 97.3214 | 100.0000 | 87.4713 | 109 | 3 | 109 | 0 | 0 | ||
| ckim-vqsr | INDEL | I1_5 | map_l250_m2_e1 | * | 94.7826 | 95.6140 | 93.9655 | 97.5904 | 109 | 5 | 109 | 7 | 1 | 14.2857 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e0 | homalt | 69.8718 | 54.2289 | 98.1982 | 86.5942 | 109 | 92 | 109 | 2 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l250_m2_e1 | * | 95.1965 | 95.6140 | 94.7826 | 96.4691 | 109 | 5 | 109 | 6 | 1 | 16.6667 | |
| ckim-vqsr | INDEL | * | map_l100_m1_e0 | hetalt | 93.5622 | 87.9032 | 100.0000 | 86.7947 | 109 | 15 | 110 | 0 | 0 | ||
| ckim-vqsr | INDEL | * | map_l100_m2_e0 | hetalt | 93.1624 | 87.2000 | 100.0000 | 87.7076 | 109 | 16 | 111 | 0 | 0 | ||
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.6884 | 81.9549 | 87.6106 | 84.2399 | 109 | 24 | 99 | 14 | 7 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l250_m2_e0 | * | 96.4602 | 96.4602 | 96.4602 | 96.3335 | 109 | 4 | 109 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_siren | hetalt | 98.6425 | 97.3214 | 100.0000 | 87.5429 | 109 | 3 | 109 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.8897 | 76.2238 | 90.8333 | 92.9947 | 109 | 34 | 109 | 11 | 1 | 9.0909 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 98.6425 | 97.3214 | 100.0000 | 75.1142 | 109 | 3 | 109 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m2_e0 | * | 96.4602 | 96.4602 | 96.4602 | 95.8623 | 109 | 4 | 109 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_siren | hetalt | 98.6425 | 97.3214 | 100.0000 | 87.5854 | 109 | 3 | 109 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | map_l250_m2_e0 | * | 92.7660 | 96.4602 | 89.3443 | 97.3426 | 109 | 4 | 109 | 13 | 2 | 15.3846 | |
| jlack-gatk | INDEL | I6_15 | map_l100_m2_e0 | * | 92.7660 | 93.9655 | 91.5966 | 89.8029 | 109 | 7 | 109 | 10 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l100_m2_e1 | * | 92.7660 | 93.9655 | 91.5966 | 90.0502 | 109 | 7 | 109 | 10 | 0 | 0.0000 | |
| jlack-gatk | INDEL | * | map_l100_m2_e0 | hetalt | 92.7695 | 87.2000 | 99.0991 | 88.2788 | 109 | 16 | 110 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D1_5 | map_l250_m1_e0 | het | 85.1562 | 98.1982 | 75.1724 | 96.7963 | 109 | 2 | 109 | 36 | 1 | 2.7778 | |
| eyeh-varpipe | INDEL | D1_5 | map_l250_m1_e0 | het | 96.8418 | 98.1982 | 95.5224 | 94.5946 | 109 | 2 | 128 | 6 | 1 | 16.6667 | |
| gduggal-bwavard | INDEL | D1_5 | map_l250_m1_e0 | het | 78.1362 | 98.1982 | 64.8810 | 95.9104 | 109 | 2 | 109 | 59 | 4 | 6.7797 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 75.4466 | 61.5819 | 97.3684 | 83.1111 | 109 | 68 | 111 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 81.9605 | 70.3226 | 98.2143 | 87.3303 | 109 | 46 | 110 | 2 | 2 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 88.6234 | 85.8268 | 91.6084 | 71.3427 | 109 | 18 | 131 | 12 | 5 | 41.6667 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m0_e0 | homalt | 96.4362 | 95.6140 | 97.2727 | 79.8165 | 109 | 5 | 107 | 3 | 1 | 33.3333 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 27.7333 | 20.3358 | 43.5897 | 65.7895 | 109 | 427 | 102 | 132 | 121 | 91.6667 | |
| gduggal-snapfb | INDEL | * | map_l250_m2_e1 | homalt | 95.1965 | 93.9655 | 96.4602 | 96.9891 | 109 | 7 | 109 | 4 | 3 | 75.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e0 | het | 76.5318 | 83.2061 | 70.8487 | 83.4554 | 109 | 22 | 192 | 79 | 55 | 69.6203 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 63.9370 | 50.2304 | 87.9310 | 40.5128 | 109 | 108 | 102 | 14 | 10 | 71.4286 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 67.2129 | 61.2360 | 74.4828 | 76.8000 | 109 | 69 | 108 | 37 | 37 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m0_e0 | homalt | 96.8889 | 95.6140 | 98.1982 | 81.0903 | 109 | 5 | 109 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 21.9561 | 12.5000 | 90.1639 | 55.1471 | 109 | 763 | 110 | 12 | 10 | 83.3333 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l250_m2_e1 | * | 95.6140 | 95.6140 | 95.6140 | 96.1745 | 109 | 5 | 109 | 5 | 2 | 40.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 99.0990 | 99.0909 | 99.1071 | 90.7970 | 109 | 1 | 111 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.9497 | 87.9032 | 94.2149 | 86.1556 | 109 | 15 | 114 | 7 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | * | map_l100_m1_e0 | hetalt | 93.5622 | 87.9032 | 100.0000 | 83.7758 | 109 | 15 | 110 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | * | map_l250_m2_e0 | homalt | 96.8889 | 94.7826 | 99.0909 | 94.5893 | 109 | 6 | 109 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 11.1795 | 0.0000 | 0.0000 | 109 | 866 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | map_l125_m0_e0 | homalt | 82.9069 | 73.6486 | 94.8276 | 89.1386 | 109 | 39 | 110 | 6 | 5 | 83.3333 | |
| astatham-gatk | INDEL | D1_5 | map_l250_m1_e0 | het | 94.3723 | 98.1982 | 90.8333 | 95.7865 | 109 | 2 | 109 | 11 | 1 | 9.0909 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 75.4780 | 60.8939 | 99.2481 | 29.2553 | 109 | 70 | 132 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | map_siren | hetalt | 98.6425 | 97.3214 | 100.0000 | 87.1765 | 109 | 3 | 109 | 0 | 0 | ||
| astatham-gatk | INDEL | I6_15 | map_l100_m2_e0 | * | 96.0352 | 93.9655 | 98.1982 | 88.6735 | 109 | 7 | 109 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | I6_15 | map_l100_m2_e1 | * | 96.0352 | 93.9655 | 98.1982 | 88.9442 | 109 | 7 | 109 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | SNP | tv | map_l250_m1_e0 | homalt | 22.5907 | 12.7336 | 100.0000 | 97.9792 | 109 | 747 | 109 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | map_l250_m2_e1 | * | 96.0352 | 95.6140 | 96.4602 | 96.4001 | 109 | 5 | 109 | 4 | 2 | 50.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_siren | hetalt | 98.6425 | 97.3214 | 100.0000 | 86.1499 | 109 | 3 | 109 | 0 | 0 | ||