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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
55201-55250 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.2618 | 91.9463 | 94.6154 | 77.5475 | 137 | 12 | 123 | 7 | 5 | 71.4286 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.2817 | 91.6667 | 99.1935 | 76.9517 | 121 | 11 | 123 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | segdup | hetalt | 96.4143 | 93.0769 | 100.0000 | 94.8341 | 121 | 9 | 123 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m1_e0 | het | 97.2332 | 97.6190 | 96.8504 | 86.2256 | 123 | 3 | 123 | 4 | 1 | 25.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2332 | 96.8504 | 97.6190 | 80.0633 | 123 | 4 | 123 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.2817 | 91.6667 | 99.1935 | 77.0370 | 121 | 11 | 123 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D6_15 | map_l100_m1_e0 | het | 96.0938 | 97.6190 | 94.6154 | 90.3274 | 123 | 3 | 123 | 7 | 2 | 28.5714 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2332 | 96.8504 | 97.6190 | 79.0698 | 123 | 4 | 123 | 3 | 2 | 66.6667 | |
| gduggal-snapfb | INDEL | D6_15 | HG002complexvar | hetalt | 67.4067 | 59.7236 | 77.3585 | 57.4866 | 605 | 408 | 123 | 36 | 35 | 97.2222 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 75.9259 | 61.5000 | 99.1935 | 60.2564 | 123 | 77 | 123 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 91.2758 | 92.1260 | 90.4412 | 74.2424 | 117 | 10 | 123 | 13 | 5 | 38.4615 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 90.7360 | 87.1622 | 94.6154 | 66.3212 | 129 | 19 | 123 | 7 | 6 | 85.7143 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 86.1876 | 77.6398 | 96.8504 | 18.5897 | 125 | 36 | 123 | 4 | 4 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | map_siren | homalt | 97.6500 | 96.1538 | 99.1935 | 74.0042 | 125 | 5 | 123 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.5017 | 79.3750 | 100.0000 | 76.3916 | 127 | 33 | 123 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.6003 | 88.1579 | 93.1818 | 89.0638 | 134 | 18 | 123 | 9 | 1 | 11.1111 | |
| ltrigg-rtg1 | INDEL | D6_15 | map_siren | homalt | 97.6500 | 96.1538 | 99.1935 | 78.0142 | 125 | 5 | 123 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | C6_15 | HG002compoundhet | hetalt | 0.0000 | 0.0000 | 99.1935 | 85.6978 | 0 | 0 | 123 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 94.9807 | 96.8504 | 93.1818 | 46.5587 | 123 | 4 | 123 | 9 | 8 | 88.8889 | |
| jli-custom | INDEL | D6_15 | map_l125_m2_e1 | * | 97.6190 | 96.0938 | 99.1935 | 89.4288 | 123 | 5 | 123 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.8504 | 96.8504 | 96.8504 | 78.9037 | 123 | 4 | 123 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | map_l100_m1_e0 | het | 96.0938 | 97.6190 | 94.6154 | 92.1734 | 123 | 3 | 123 | 7 | 2 | 28.5714 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m1_e0 | het | 94.6154 | 97.6190 | 91.7910 | 88.3173 | 123 | 3 | 123 | 11 | 6 | 54.5455 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l125_m2_e0 | * | 98.4000 | 97.6190 | 99.1935 | 90.1587 | 123 | 3 | 123 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l125_m2_e1 | * | 97.6378 | 96.8750 | 98.4127 | 90.2098 | 124 | 4 | 124 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l100_m2_e0 | het | 95.7529 | 94.6565 | 96.8750 | 86.7632 | 124 | 7 | 124 | 4 | 1 | 25.0000 | |
| dgrover-gatk | INDEL | * | segdup | hetalt | 96.8254 | 93.8462 | 100.0000 | 94.7679 | 122 | 8 | 124 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | segdup | * | 68.8950 | 65.9686 | 72.0930 | 94.5707 | 126 | 65 | 124 | 48 | 48 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | func_cds | homalt | 99.1798 | 99.1597 | 99.2000 | 23.7805 | 118 | 1 | 124 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 74.4745 | 97.6378 | 60.1942 | 45.5026 | 124 | 3 | 124 | 82 | 82 | 100.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 17.4295 | 10.9553 | 42.6117 | 84.6357 | 125 | 1016 | 124 | 167 | 140 | 83.8323 | |
| ckim-dragen | INDEL | D6_15 | map_l100_m1_e0 | het | 97.2549 | 98.4127 | 96.1240 | 90.5564 | 124 | 2 | 124 | 5 | 0 | 0.0000 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.5866 | 96.7742 | 98.4127 | 90.1946 | 120 | 4 | 124 | 2 | 1 | 50.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.6667 | 97.6378 | 71.6763 | 51.1299 | 124 | 3 | 124 | 49 | 47 | 95.9184 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 97.1193 | 94.4000 | 100.0000 | 28.7356 | 118 | 7 | 124 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m1_e0 | het | 95.7529 | 98.4127 | 93.2331 | 89.8162 | 124 | 2 | 124 | 9 | 2 | 22.2222 | |
| astatham-gatk | INDEL | * | segdup | hetalt | 96.8254 | 93.8462 | 100.0000 | 94.7122 | 122 | 8 | 124 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 97.6378 | 97.6378 | 97.6378 | 48.9960 | 124 | 3 | 124 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 95.7529 | 97.6378 | 93.9394 | 49.0347 | 124 | 3 | 124 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | D6_15 | map_l100_m1_e0 | het | 97.2549 | 98.4127 | 96.1240 | 88.6544 | 124 | 2 | 124 | 5 | 1 | 20.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 74.7720 | 59.7087 | 100.0000 | 57.0934 | 123 | 83 | 124 | 0 | 0 | ||
| jli-custom | INDEL | * | segdup | hetalt | 96.8254 | 93.8462 | 100.0000 | 94.4815 | 122 | 8 | 124 | 0 | 0 | ||
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 87.5596 | 80.9211 | 95.3846 | 90.3561 | 123 | 29 | 124 | 6 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 97.6378 | 97.6378 | 97.6378 | 50.0000 | 124 | 3 | 124 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0299 | 98.4252 | 97.6378 | 70.6019 | 125 | 2 | 124 | 3 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 90.3872 | 86.4865 | 94.6565 | 71.5217 | 128 | 20 | 124 | 7 | 6 | 85.7143 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 35.1693 | 26.0417 | 54.1485 | 80.6424 | 125 | 355 | 124 | 105 | 103 | 98.0952 | |
| jli-custom | INDEL | D6_15 | map_l100_m1_e0 | het | 96.8658 | 97.6190 | 96.1240 | 87.0221 | 123 | 3 | 124 | 5 | 1 | 20.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 0.6938 | 0.3506 | 33.1551 | 66.3366 | 4 | 1137 | 124 | 250 | 96 | 38.4000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 60.9231 | 51.0140 | 75.6098 | 42.2535 | 327 | 314 | 124 | 40 | 40 | 100.0000 | |