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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25801-25850 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | I16_PLUS | * | hetalt | 95.7167 | 92.0877 | 99.6434 | 54.9150 | 1932 | 166 | 1956 | 7 | 6 | 85.7143 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 95.7166 | 95.9906 | 95.4442 | 52.1613 | 2442 | 102 | 2514 | 120 | 52 | 43.3333 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 95.7165 | 94.9376 | 96.5082 | 74.6707 | 1294 | 69 | 1299 | 47 | 37 | 78.7234 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m2_e0 | het | 95.7149 | 96.4968 | 94.9456 | 82.1389 | 1212 | 44 | 1221 | 65 | 8 | 12.3077 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m2_e1 | hetalt | 95.7143 | 91.7808 | 100.0000 | 75.0929 | 67 | 6 | 67 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | * | map_l250_m2_e0 | het | 95.7143 | 95.7143 | 95.7143 | 95.7282 | 201 | 9 | 201 | 9 | 2 | 22.2222 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m2_e1 | hetalt | 95.7143 | 91.7808 | 100.0000 | 74.1313 | 67 | 6 | 67 | 0 | 0 | ||
| ckim-vqsr | INDEL | D6_15 | map_l100_m2_e1 | hetalt | 95.7143 | 91.7808 | 100.0000 | 75.0929 | 67 | 6 | 67 | 0 | 0 | ||
| jlack-gatk | SNP | * | map_l100_m2_e0 | het | 95.7132 | 99.2694 | 92.4029 | 79.6895 | 46060 | 339 | 46049 | 3786 | 266 | 7.0259 | |
| gduggal-bwafb | INDEL | * | map_l150_m2_e0 | het | 95.7120 | 94.3709 | 97.0917 | 88.8376 | 855 | 51 | 868 | 26 | 2 | 7.6923 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.7107 | 95.7317 | 95.6897 | 85.9903 | 157 | 7 | 111 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_siren | het | 95.7096 | 93.4477 | 98.0837 | 71.4678 | 85029 | 5962 | 85015 | 1661 | 101 | 6.0807 | |
| gduggal-snapplat | SNP | ti | map_l100_m1_e0 | * | 95.7091 | 94.2918 | 97.1698 | 74.6083 | 45195 | 2736 | 45216 | 1317 | 683 | 51.8603 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.7089 | 96.7345 | 94.7048 | 54.9593 | 27046 | 913 | 27829 | 1556 | 769 | 49.4216 | |
| astatham-gatk | INDEL | * | map_l100_m0_e0 | het | 95.7071 | 94.9070 | 96.5209 | 88.5382 | 969 | 52 | 971 | 35 | 4 | 11.4286 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.7068 | 91.9529 | 99.7804 | 63.8066 | 15609 | 1366 | 15447 | 34 | 16 | 47.0588 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.7068 | 91.9529 | 99.7804 | 63.8066 | 15609 | 1366 | 15447 | 34 | 16 | 47.0588 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.7062 | 94.1759 | 97.2870 | 68.5937 | 3331 | 206 | 3335 | 93 | 84 | 90.3226 | |
| gduggal-bwaplat | INDEL | D1_5 | func_cds | het | 95.7055 | 91.7647 | 100.0000 | 60.4061 | 78 | 7 | 78 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D1_5 | map_siren | hetalt | 95.7055 | 92.8571 | 98.7342 | 91.2804 | 78 | 6 | 78 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 95.7055 | 91.7647 | 100.0000 | 59.8985 | 78 | 7 | 79 | 0 | 0 | ||
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.7049 | 99.1018 | 92.5331 | 67.6378 | 1324 | 12 | 1326 | 107 | 8 | 7.4766 | |
| cchapple-custom | INDEL | D6_15 | map_l125_m0_e0 | het | 95.7044 | 96.5517 | 94.8718 | 91.7021 | 28 | 1 | 37 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | map_l100_m2_e1 | * | 95.7031 | 93.8182 | 97.6654 | 81.3633 | 258 | 17 | 251 | 6 | 1 | 16.6667 | |
| gduggal-snapfb | SNP | ti | map_l150_m1_e0 | het | 95.7023 | 96.5643 | 94.8555 | 74.3999 | 11945 | 425 | 11948 | 648 | 334 | 51.5432 | |
| ckim-dragen | INDEL | * | map_l125_m2_e1 | het | 95.7012 | 96.4489 | 94.9650 | 90.2767 | 1358 | 50 | 1358 | 72 | 8 | 11.1111 | |
| gduggal-snapfb | SNP | * | map_l150_m1_e0 | het | 95.7011 | 96.8575 | 94.5719 | 74.7840 | 18709 | 607 | 18712 | 1074 | 507 | 47.2067 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.7010 | 93.8654 | 97.6098 | 62.3325 | 1729 | 113 | 1756 | 43 | 13 | 30.2326 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 95.7008 | 92.5507 | 99.0729 | 30.3936 | 3193 | 257 | 3206 | 30 | 24 | 80.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m0_e0 | het | 95.6989 | 95.7055 | 95.6923 | 87.6614 | 312 | 14 | 311 | 14 | 1 | 7.1429 | |
| ckim-gatk | INDEL | I1_5 | map_l150_m2_e1 | het | 95.6989 | 97.7918 | 93.6937 | 94.1905 | 310 | 7 | 312 | 21 | 1 | 4.7619 | |
| gduggal-snapfb | SNP | tv | map_l150_m1_e0 | het | 95.6989 | 97.3798 | 94.0751 | 75.4297 | 6764 | 182 | 6764 | 426 | 173 | 40.6103 | |
| rpoplin-dv42 | INDEL | D6_15 | segdup | het | 95.6989 | 96.7391 | 94.6809 | 94.0881 | 89 | 3 | 89 | 5 | 5 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6989 | 94.3463 | 97.0909 | 72.3061 | 267 | 16 | 267 | 8 | 8 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.6982 | 92.8933 | 98.6777 | 52.9173 | 6418 | 491 | 6418 | 86 | 75 | 87.2093 | |
| ckim-dragen | SNP | tv | map_l250_m0_e0 | * | 95.6975 | 95.9477 | 95.4486 | 93.6441 | 734 | 31 | 734 | 35 | 5 | 14.2857 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 95.6974 | 93.6170 | 97.8723 | 81.0484 | 44 | 3 | 46 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 95.6974 | 93.6170 | 97.8723 | 81.4961 | 44 | 3 | 46 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 95.6974 | 93.6170 | 97.8723 | 81.4229 | 44 | 3 | 46 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6971 | 98.2332 | 93.2886 | 69.7769 | 278 | 5 | 278 | 20 | 20 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6964 | 95.4417 | 95.9524 | 73.2314 | 2031 | 97 | 2015 | 85 | 77 | 90.5882 | |
| hfeng-pmm1 | INDEL | * | map_l250_m1_e0 | * | 95.6954 | 94.7541 | 96.6555 | 94.7800 | 289 | 16 | 289 | 10 | 3 | 30.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m0_e0 | het | 95.6942 | 96.8116 | 94.6023 | 89.6043 | 334 | 11 | 333 | 19 | 1 | 5.2632 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m0_e0 | het | 95.6938 | 94.3396 | 97.0874 | 93.7764 | 100 | 6 | 100 | 3 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m0_e0 | * | 95.6938 | 97.0874 | 94.3396 | 90.0094 | 100 | 3 | 100 | 6 | 1 | 16.6667 | |
| ckim-vqsr | INDEL | D6_15 | map_l100_m0_e0 | * | 95.6938 | 97.0874 | 94.3396 | 91.8147 | 100 | 3 | 100 | 6 | 1 | 16.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l250_m1_e0 | * | 95.6938 | 94.3396 | 97.0874 | 96.3358 | 100 | 6 | 100 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.6930 | 94.2857 | 97.1429 | 83.7209 | 33 | 2 | 34 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.6924 | 96.0989 | 95.2894 | 42.1888 | 6454 | 262 | 6453 | 319 | 300 | 94.0439 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.6923 | 100.0000 | 91.7404 | 70.4446 | 311 | 0 | 311 | 28 | 27 | 96.4286 | |