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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56851-56900 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 75.5642 | 91.2162 | 64.4970 | 75.8226 | 135 | 13 | 109 | 60 | 59 | 98.3333 | |
| asubramanian-gatk | INDEL | D6_15 | map_l100_m2_e0 | het | 91.8288 | 90.0763 | 93.6508 | 91.9796 | 118 | 13 | 118 | 8 | 2 | 25.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l100_m2_e1 | het | 92.0981 | 90.3704 | 93.8931 | 91.8176 | 122 | 13 | 123 | 8 | 2 | 25.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.3398 | 93.6585 | 93.0233 | 91.4274 | 192 | 13 | 200 | 15 | 11 | 73.3333 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.3398 | 93.6585 | 93.0233 | 91.4274 | 192 | 13 | 200 | 15 | 11 | 73.3333 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 91.0337 | 84.5238 | 98.6301 | 61.1702 | 71 | 13 | 72 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.2177 | 95.4861 | 96.9605 | 77.6949 | 275 | 13 | 319 | 10 | 8 | 80.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_l250_m1_e0 | het | 82.4561 | 78.3333 | 87.0370 | 97.7070 | 47 | 13 | 47 | 7 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.5017 | 91.3907 | 100.0000 | 45.7576 | 138 | 13 | 179 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l100_m1_e0 | * | 93.1123 | 88.5965 | 98.1132 | 89.0383 | 101 | 13 | 104 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l100_m2_e0 | * | 93.2365 | 88.7931 | 98.1481 | 89.7045 | 103 | 13 | 106 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l100_m2_e1 | * | 93.2442 | 88.7931 | 98.1651 | 89.8793 | 103 | 13 | 107 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | SNP | * | map_l100_m0_e0 | hetalt | 31.5789 | 18.7500 | 100.0000 | 95.2381 | 3 | 13 | 3 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | func_cds | het | 99.4171 | 99.5107 | 99.3236 | 42.1899 | 2644 | 13 | 2643 | 18 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | map_l100_m0_e0 | hetalt | 31.5789 | 18.7500 | 100.0000 | 95.2381 | 3 | 13 | 3 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.2288 | 98.9002 | 86.4006 | 59.8278 | 1169 | 13 | 1169 | 184 | 183 | 99.4565 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 94.9717 | 94.1441 | 95.8140 | 64.6962 | 209 | 13 | 206 | 9 | 6 | 66.6667 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9022 | 98.6444 | 99.1614 | 72.2190 | 946 | 13 | 946 | 8 | 6 | 75.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5837 | 99.9406 | 99.2292 | 75.9456 | 21886 | 13 | 21886 | 170 | 169 | 99.4118 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.0305 | 96.8370 | 99.2537 | 71.0999 | 398 | 13 | 399 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_siren | * | 97.5395 | 97.4460 | 97.6331 | 85.2014 | 496 | 13 | 495 | 12 | 2 | 16.6667 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.5446 | 93.6893 | 97.4747 | 88.2562 | 193 | 13 | 193 | 5 | 2 | 40.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.1978 | 94.7154 | 97.7273 | 88.4393 | 233 | 13 | 215 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | het | 94.0512 | 98.4706 | 90.0115 | 86.3970 | 837 | 13 | 784 | 87 | 85 | 97.7011 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5836 | 98.3269 | 98.8417 | 84.3252 | 764 | 13 | 768 | 9 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e0 | het | 98.6122 | 98.3607 | 98.8651 | 85.4415 | 780 | 13 | 784 | 9 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e1 | het | 98.6414 | 98.3951 | 98.8889 | 85.5098 | 797 | 13 | 801 | 9 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 88.0734 | 78.6885 | 100.0000 | 54.2857 | 48 | 13 | 48 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I6_15 | map_siren | * | 96.6887 | 95.7377 | 97.6589 | 84.7837 | 292 | 13 | 292 | 7 | 5 | 71.4286 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.4720 | 99.4510 | 99.4930 | 87.3253 | 2355 | 13 | 2355 | 12 | 11 | 91.6667 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7675 | 99.7915 | 99.7435 | 70.0911 | 6223 | 13 | 6223 | 16 | 12 | 75.0000 | |
| 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 | |
| bgallagher-sentieon | SNP | ti | map_l250_m0_e0 | het | 97.6670 | 98.6081 | 96.7437 | 93.8565 | 921 | 13 | 921 | 31 | 5 | 16.1290 | |
| bgallagher-sentieon | SNP | tv | segdup | het | 99.2561 | 99.7541 | 98.7631 | 92.1695 | 5274 | 13 | 5270 | 66 | 0 | 0.0000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.2253 | 98.2265 | 98.2240 | 66.6515 | 720 | 13 | 719 | 13 | 11 | 84.6154 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.7635 | 97.0721 | 98.4649 | 72.6946 | 431 | 13 | 449 | 7 | 7 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 92.0685 | 92.3077 | 91.8306 | 51.3613 | 156 | 13 | 607 | 54 | 54 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.8387 | 93.7799 | 97.9899 | 66.6107 | 196 | 13 | 195 | 4 | 4 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | map_siren | hetalt | 0.0000 | 86.8687 | 0.0000 | 0.0000 | 86 | 13 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7108 | 93.6893 | 95.7547 | 87.1903 | 193 | 13 | 203 | 9 | 7 | 77.7778 | |
| ciseli-custom | INDEL | D16_PLUS | map_l100_m0_e0 | het | 46.4088 | 31.5789 | 87.5000 | 93.2773 | 6 | 13 | 7 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | D16_PLUS | map_l125_m1_e0 | * | 66.6667 | 51.8519 | 93.3333 | 94.5652 | 14 | 13 | 14 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | D16_PLUS | map_l125_m2_e0 | * | 66.6667 | 51.8519 | 93.3333 | 94.9495 | 14 | 13 | 14 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | D1_5 | map_l250_m0_e0 | het | 62.0843 | 60.6061 | 63.6364 | 98.5739 | 20 | 13 | 21 | 12 | 1 | 8.3333 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 13 | 0 | 0 | 0 | |||
| ciseli-custom | INDEL | I6_15 | map_l100_m0_e0 | het | 34.7826 | 23.5294 | 66.6667 | 93.8776 | 4 | 13 | 4 | 2 | 2 | 100.0000 | |
| ciseli-custom | INDEL | I6_15 | map_l150_m2_e1 | het | 31.5789 | 18.7500 | 100.0000 | 97.6000 | 3 | 13 | 3 | 0 | 0 | ||
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 94.8802 | 99.4227 | 90.7347 | 62.0390 | 2239 | 13 | 2223 | 227 | 39 | 17.1806 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.9231 | 98.9002 | 80.7746 | 59.1871 | 1169 | 13 | 1168 | 278 | 276 | 99.2806 | |
| ckim-dragen | INDEL | * | map_l100_m1_e0 | hetalt | 94.4681 | 89.5161 | 100.0000 | 85.7143 | 111 | 13 | 112 | 0 | 0 | ||