PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69651-69700 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1996 | 99.5127 | 98.8884 | 74.7272 | 14500 | 71 | 14500 | 163 | 14 | 8.5890 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.1996 | 99.5127 | 98.8884 | 74.7272 | 14500 | 71 | 14500 | 163 | 14 | 8.5890 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5342 | 97.3339 | 99.7644 | 69.1366 | 19057 | 522 | 19057 | 45 | 14 | 31.1111 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5342 | 97.3339 | 99.7644 | 69.1366 | 19057 | 522 | 19057 | 45 | 14 | 31.1111 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4245 | 98.9414 | 99.9124 | 64.7733 | 27385 | 293 | 27376 | 24 | 14 | 58.3333 | |
| astatham-gatk | SNP | tv | map_l125_m1_e0 | * | 91.3826 | 84.3531 | 99.6900 | 75.2873 | 13510 | 2506 | 13508 | 42 | 14 | 33.3333 | |
| astatham-gatk | SNP | tv | map_l125_m2_e0 | * | 91.4434 | 84.4502 | 99.6992 | 76.7428 | 13925 | 2564 | 13923 | 42 | 14 | 33.3333 | |
| astatham-gatk | SNP | tv | map_l125_m2_e1 | * | 91.4416 | 84.4450 | 99.7023 | 76.7879 | 14066 | 2591 | 14064 | 42 | 14 | 33.3333 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.6299 | 98.3786 | 98.8826 | 80.6311 | 5036 | 83 | 5044 | 57 | 14 | 24.5614 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.2904 | 94.1423 | 98.5390 | 34.0824 | 1125 | 70 | 1214 | 18 | 14 | 77.7778 | |
| asubramanian-gatk | INDEL | * | map_siren | het | 91.9143 | 87.2227 | 97.1393 | 86.6717 | 3932 | 576 | 3939 | 116 | 14 | 12.0690 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1850 | 95.5951 | 98.8287 | 37.6825 | 1237 | 57 | 1350 | 16 | 14 | 87.5000 | |
| anovak-vg | INDEL | D16_PLUS | map_siren | * | 55.8559 | 43.3566 | 78.4810 | 82.5221 | 62 | 81 | 62 | 17 | 14 | 82.3529 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 11.7647 | 6.8750 | 40.7407 | 67.2727 | 11 | 149 | 22 | 32 | 14 | 43.7500 | |
| astatham-gatk | INDEL | D16_PLUS | * | hetalt | 96.8051 | 94.4128 | 99.3217 | 38.8807 | 1825 | 108 | 2050 | 14 | 14 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | HG002complexvar | hetalt | 93.7269 | 90.6883 | 96.9762 | 47.9190 | 224 | 23 | 449 | 14 | 14 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8289 | 94.4588 | 99.3210 | 38.8312 | 1824 | 107 | 2048 | 14 | 14 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8289 | 94.4588 | 99.3210 | 38.8312 | 1824 | 107 | 2048 | 14 | 14 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4739 | 99.3445 | 99.6037 | 78.1364 | 6062 | 40 | 6032 | 24 | 14 | 58.3333 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.4375 | 99.2995 | 97.5904 | 67.0261 | 567 | 4 | 567 | 14 | 14 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6848 | 91.6268 | 97.9540 | 67.5249 | 766 | 70 | 766 | 16 | 14 | 87.5000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.3614 | 95.6053 | 99.1831 | 62.6285 | 2306 | 106 | 2307 | 19 | 14 | 73.6842 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4449 | 99.3179 | 97.5871 | 73.2136 | 728 | 5 | 728 | 18 | 14 | 77.7778 | |
| bgallagher-sentieon | INDEL | D16_PLUS | * | hetalt | 96.4203 | 93.6886 | 99.3161 | 38.7676 | 1811 | 122 | 2033 | 14 | 14 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002complexvar | hetalt | 93.0557 | 89.4737 | 96.9365 | 48.0682 | 221 | 26 | 443 | 14 | 14 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4163 | 93.6820 | 99.3151 | 38.7290 | 1809 | 122 | 2030 | 14 | 14 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4163 | 93.6820 | 99.3151 | 38.7290 | 1809 | 122 | 2030 | 14 | 14 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | map_l125_m1_e0 | het | 49.2776 | 39.9177 | 64.3713 | 91.2405 | 194 | 292 | 215 | 119 | 14 | 11.7647 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 37.4335 | 27.0492 | 60.7595 | 65.3509 | 33 | 89 | 48 | 31 | 14 | 45.1613 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 26.2295 | 25.0000 | 27.5862 | 55.3846 | 6 | 18 | 8 | 21 | 14 | 66.6667 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.3912 | 98.6014 | 98.1818 | 44.9656 | 846 | 12 | 864 | 16 | 14 | 87.5000 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 81.0909 | 85.5072 | 77.1084 | 86.6129 | 59 | 10 | 64 | 19 | 14 | 73.6842 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.2183 | 97.1882 | 97.2484 | 66.9538 | 1348 | 39 | 1343 | 38 | 14 | 36.8421 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3362 | 98.9137 | 99.7624 | 51.3621 | 11746 | 129 | 11756 | 28 | 14 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.1659 | 95.8604 | 98.5075 | 61.5311 | 1181 | 51 | 1188 | 18 | 14 | 77.7778 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.0619 | 99.3157 | 98.8095 | 62.8201 | 1161 | 8 | 1162 | 14 | 14 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002complexvar | * | 97.0837 | 95.3400 | 98.8924 | 68.3287 | 1248 | 61 | 1250 | 14 | 14 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 78.0641 | 95.8333 | 65.8537 | 76.1628 | 23 | 1 | 27 | 14 | 14 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.0574 | 96.7213 | 97.3958 | 75.1053 | 472 | 16 | 748 | 20 | 14 | 70.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.2622 | 98.0574 | 88.9141 | 86.8298 | 2322 | 46 | 2350 | 293 | 14 | 4.7782 | |
| asubramanian-gatk | SNP | * | map_l100_m2_e0 | * | 60.9821 | 43.8984 | 99.8339 | 85.3165 | 32469 | 41495 | 32463 | 54 | 14 | 25.9259 | |
| asubramanian-gatk | SNP | * | map_l100_m2_e0 | het | 63.7840 | 46.8782 | 99.7614 | 87.0574 | 21751 | 24648 | 21745 | 52 | 14 | 26.9231 | |
| asubramanian-gatk | SNP | * | map_l100_m2_e1 | * | 61.2013 | 44.1254 | 99.8365 | 85.2564 | 32978 | 41759 | 32972 | 54 | 14 | 25.9259 | |
| asubramanian-gatk | SNP | * | map_l100_m2_e1 | het | 64.0057 | 47.1171 | 99.7652 | 87.0062 | 22097 | 24801 | 22091 | 52 | 14 | 26.9231 | |
| asubramanian-gatk | SNP | * | segdup | * | 98.1237 | 96.8005 | 99.4836 | 92.0357 | 27169 | 898 | 27163 | 141 | 14 | 9.9291 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | het | 98.1344 | 96.5702 | 99.7500 | 39.9164 | 9179 | 326 | 9177 | 23 | 14 | 60.8696 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 89.6552 | 95.1220 | 84.7826 | 76.1039 | 78 | 4 | 78 | 14 | 14 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.7393 | 98.6981 | 98.7805 | 73.6869 | 1592 | 21 | 1539 | 19 | 14 | 73.6842 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8899 | 98.7393 | 99.0409 | 76.8376 | 2428 | 31 | 2375 | 23 | 14 | 60.8696 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.2628 | 99.1167 | 99.4094 | 87.9803 | 2693 | 24 | 2693 | 16 | 14 | 87.5000 | |