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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18001-18050 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.9951 | 96.7873 | 99.2334 | 74.5777 | 2380 | 79 | 2330 | 18 | 13 | 72.2222 | |
| ckim-gatk | INDEL | I6_15 | segdup | * | 97.9943 | 97.7143 | 98.2759 | 93.8711 | 171 | 4 | 171 | 3 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m1_e0 | het | 97.9933 | 97.0223 | 98.9839 | 74.5035 | 1173 | 36 | 1169 | 12 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.9932 | 99.8407 | 96.2129 | 58.2077 | 3760 | 6 | 3760 | 148 | 145 | 97.9730 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.9932 | 99.8407 | 96.2129 | 58.2077 | 3760 | 6 | 3760 | 148 | 145 | 97.9730 | |
| hfeng-pmm2 | INDEL | * | map_l150_m2_e0 | * | 97.9932 | 98.6506 | 97.3445 | 90.3934 | 1389 | 19 | 1393 | 38 | 6 | 15.7895 | |
| raldana-dualsentieon | INDEL | * | map_l100_m2_e1 | * | 97.9928 | 97.4175 | 98.5749 | 83.4180 | 3659 | 97 | 3666 | 53 | 13 | 24.5283 | |
| jli-custom | INDEL | D6_15 | map_l125_m2_e0 | * | 97.9920 | 96.8254 | 99.1870 | 89.2576 | 122 | 4 | 122 | 1 | 0 | 0.0000 | |
| astatham-gatk | SNP | * | map_l250_m0_e0 | homalt | 97.9920 | 96.9793 | 99.0260 | 91.4528 | 610 | 19 | 610 | 6 | 5 | 83.3333 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.9919 | 97.7475 | 98.2375 | 67.0385 | 63879 | 1472 | 63652 | 1142 | 1030 | 90.1926 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.9919 | 97.7475 | 98.2375 | 67.0385 | 63879 | 1472 | 63652 | 1142 | 1030 | 90.1926 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9914 | 97.4553 | 98.5335 | 44.4822 | 10800 | 282 | 11758 | 175 | 165 | 94.2857 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9901 | 97.8124 | 98.1685 | 60.1939 | 54414 | 1217 | 54457 | 1016 | 736 | 72.4409 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9893 | 96.9635 | 99.0370 | 71.9042 | 15104 | 473 | 15118 | 147 | 133 | 90.4762 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.9888 | 97.4071 | 98.5775 | 24.3272 | 1390 | 37 | 1386 | 20 | 20 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.9888 | 96.2435 | 99.7985 | 65.0879 | 2972 | 116 | 2972 | 6 | 5 | 83.3333 | |
| hfeng-pmm1 | INDEL | * | map_l125_m1_e0 | * | 97.9886 | 97.0574 | 98.9377 | 85.1509 | 2045 | 62 | 2049 | 22 | 4 | 18.1818 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | het | 97.9886 | 98.4375 | 97.5439 | 89.1635 | 1386 | 22 | 1390 | 35 | 5 | 14.2857 | |
| gduggal-snapvard | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.9882 | 96.8323 | 99.1721 | 49.4419 | 9782 | 320 | 9703 | 81 | 32 | 39.5062 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m2_e0 | het | 97.9878 | 97.0541 | 98.9396 | 75.7755 | 1219 | 37 | 1213 | 13 | 1 | 7.6923 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.9878 | 96.2873 | 99.7494 | 25.8824 | 2386 | 92 | 2388 | 6 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e1 | * | 97.9875 | 97.9847 | 97.9903 | 91.3313 | 1410 | 29 | 1414 | 29 | 7 | 24.1379 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.9874 | 96.4793 | 99.5434 | 33.1326 | 7810 | 285 | 7849 | 36 | 36 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.9872 | 99.1753 | 96.8273 | 68.0073 | 3247 | 27 | 3235 | 106 | 103 | 97.1698 | |
| ckim-isaac | INDEL | D1_5 | * | het | 97.9869 | 97.6340 | 98.3423 | 46.0249 | 85502 | 2072 | 85013 | 1433 | 986 | 68.8067 | |
| hfeng-pmm2 | INDEL | * | tech_badpromoters | * | 97.9866 | 96.0526 | 100.0000 | 52.9032 | 73 | 3 | 73 | 0 | 0 | ||
| jli-custom | INDEL | * | tech_badpromoters | * | 97.9866 | 96.0526 | 100.0000 | 53.7975 | 73 | 3 | 73 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e1 | het | 97.9860 | 97.7011 | 98.2726 | 88.3079 | 510 | 12 | 512 | 9 | 2 | 22.2222 | |
| cchapple-custom | SNP | tv | map_l250_m2_e0 | homalt | 97.9858 | 96.0512 | 100.0000 | 85.3349 | 900 | 37 | 900 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9856 | 97.6629 | 98.3105 | 52.2428 | 10823 | 259 | 10823 | 186 | 181 | 97.3118 | |
| ltrigg-rtg2 | SNP | tv | map_l150_m1_e0 | het | 97.9852 | 96.2712 | 99.7612 | 57.9109 | 6687 | 259 | 6685 | 16 | 1 | 6.2500 | |
| jlack-gatk | INDEL | I6_15 | * | het | 97.9846 | 98.0664 | 97.9029 | 60.0128 | 9839 | 194 | 9804 | 210 | 112 | 53.3333 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m1_e0 | het | 97.9843 | 97.3244 | 98.6532 | 90.9589 | 291 | 8 | 293 | 4 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9841 | 96.0831 | 99.9618 | 27.3710 | 5225 | 213 | 5236 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l150_m2_e1 | * | 97.9841 | 96.7866 | 99.2116 | 86.8612 | 753 | 25 | 755 | 6 | 1 | 16.6667 | |
| jli-custom | INDEL | D1_5 | map_l125_m0_e0 | * | 97.9839 | 97.9839 | 97.9839 | 87.4399 | 486 | 10 | 486 | 10 | 3 | 30.0000 | |
| gduggal-bwaplat | SNP | ti | HG002complexvar | * | 97.9838 | 97.0464 | 98.9394 | 19.5056 | 493419 | 15017 | 493754 | 5293 | 700 | 13.2250 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m1_e0 | homalt | 97.9836 | 98.4848 | 97.4874 | 91.7152 | 195 | 3 | 194 | 5 | 3 | 60.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9833 | 96.5224 | 99.4891 | 37.1848 | 1249 | 45 | 1363 | 7 | 7 | 100.0000 | |
| gduggal-snapvard | SNP | ti | map_siren | homalt | 97.9831 | 96.2100 | 99.8227 | 51.8924 | 36479 | 1437 | 36035 | 64 | 54 | 84.3750 | |
| ckim-dragen | INDEL | D6_15 | HG002complexvar | * | 97.9831 | 97.6047 | 98.3644 | 58.6538 | 5175 | 127 | 5172 | 86 | 83 | 96.5116 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9829 | 96.4509 | 99.5644 | 27.1624 | 5245 | 193 | 5257 | 23 | 22 | 95.6522 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9828 | 98.1401 | 97.8261 | 72.8896 | 1583 | 30 | 1530 | 34 | 24 | 70.5882 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.9828 | 97.6625 | 98.3051 | 30.8535 | 2674 | 64 | 2668 | 46 | 33 | 71.7391 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.9827 | 96.0452 | 100.0000 | 74.9267 | 170 | 7 | 171 | 0 | 0 | ||
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.9827 | 96.0452 | 100.0000 | 69.1415 | 170 | 7 | 266 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.9827 | 98.8372 | 97.1429 | 80.2036 | 170 | 2 | 170 | 5 | 1 | 20.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m2_e1 | het | 97.9827 | 97.6623 | 98.3051 | 85.1328 | 752 | 18 | 754 | 13 | 2 | 15.3846 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.9826 | 99.7269 | 96.2982 | 53.7111 | 9495 | 26 | 9495 | 365 | 360 | 98.6301 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m2_e0 | * | 97.9825 | 97.7253 | 98.2410 | 85.7697 | 1117 | 26 | 1117 | 20 | 8 | 40.0000 | |