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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
35201-35250 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D6_15 | segdup | het | 97.2067 | 94.5652 | 100.0000 | 96.0775 | 87 | 5 | 87 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 89.7959 | 81.4815 | 100.0000 | 92.4528 | 22 | 5 | 20 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.2984 | 97.1429 | 99.4819 | 65.9011 | 170 | 5 | 192 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.2241 | 93.9024 | 83.1933 | 72.9545 | 77 | 5 | 99 | 20 | 18 | 90.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.4382 | 90.1961 | 99.0991 | 85.5280 | 46 | 5 | 110 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_siren | hetalt | 97.2727 | 95.5357 | 99.0741 | 87.9867 | 107 | 5 | 107 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_siren | homalt | 95.5056 | 94.4444 | 96.5909 | 86.3142 | 85 | 5 | 85 | 3 | 2 | 66.6667 | |
| 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 | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.6981 | 96.2121 | 99.2308 | 79.2000 | 127 | 5 | 129 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.2777 | 97.5124 | 95.0739 | 88.5181 | 196 | 5 | 193 | 10 | 1 | 10.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.3205 | 99.5404 | 97.1300 | 67.2155 | 1083 | 5 | 1083 | 32 | 26 | 81.2500 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 92.1348 | 89.1304 | 95.3488 | 68.6131 | 41 | 5 | 41 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l100_m2_e1 | hetalt | 90.9091 | 83.3333 | 100.0000 | 78.4000 | 25 | 5 | 27 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.1735 | 98.8506 | 97.5057 | 69.0309 | 430 | 5 | 430 | 11 | 5 | 45.4545 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5466 | 99.6757 | 99.4179 | 77.8922 | 1537 | 5 | 1537 | 9 | 5 | 55.5556 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8468 | 99.7812 | 99.9125 | 46.5872 | 2280 | 5 | 2283 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m0_e0 | * | 97.9095 | 98.9919 | 96.8504 | 88.8865 | 491 | 5 | 492 | 16 | 3 | 18.7500 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l150_m2_e1 | het | 97.8305 | 99.0421 | 96.6480 | 89.9495 | 517 | 5 | 519 | 18 | 3 | 16.6667 | |
| bgallagher-sentieon | INDEL | D1_5 | map_siren | hetalt | 96.3415 | 94.0476 | 98.7500 | 89.6507 | 79 | 5 | 79 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5522 | 99.5025 | 99.6020 | 65.6057 | 1000 | 5 | 1001 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | I1_5 | func_cds | homalt | 87.3563 | 95.7983 | 80.2817 | 31.0680 | 114 | 5 | 114 | 28 | 26 | 92.8571 | |
| anovak-vg | INDEL | I1_5 | map_l150_m1_e0 | hetalt | 0.0000 | 44.4444 | 0.0000 | 0.0000 | 4 | 5 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l150_m2_e0 | hetalt | 0.0000 | 44.4444 | 0.0000 | 0.0000 | 4 | 5 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l250_m1_e0 | homalt | 69.3408 | 88.6364 | 56.9444 | 94.4573 | 39 | 5 | 41 | 31 | 28 | 90.3226 | |
| anovak-vg | INDEL | I1_5 | map_l250_m2_e0 | homalt | 68.7117 | 88.8889 | 56.0000 | 95.0723 | 40 | 5 | 42 | 33 | 30 | 90.9091 | |
| anovak-vg | INDEL | I1_5 | map_l250_m2_e1 | homalt | 69.2187 | 89.1304 | 56.5789 | 95.1592 | 41 | 5 | 43 | 33 | 30 | 90.9091 | |
| anovak-vg | INDEL | I6_15 | map_l125_m0_e0 | het | 51.9481 | 44.4444 | 62.5000 | 88.7324 | 4 | 5 | 10 | 6 | 1 | 16.6667 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 74.0741 | 66.6667 | 83.3333 | 95.0000 | 10 | 5 | 10 | 2 | 1 | 50.0000 | |
| anovak-vg | SNP | * | map_l125_m0_e0 | hetalt | 0.0000 | 44.4444 | 0.0000 | 0.0000 | 4 | 5 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | func_cds | hetalt | 0.0000 | 37.5000 | 0.0000 | 0.0000 | 3 | 5 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 16.6667 | 0.0000 | 0.0000 | 1 | 5 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l125_m0_e0 | hetalt | 0.0000 | 37.5000 | 0.0000 | 0.0000 | 3 | 5 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 83.0165 | 87.8049 | 78.7234 | 89.4144 | 36 | 5 | 37 | 10 | 7 | 70.0000 | |
| anovak-vg | SNP | tv | map_l125_m0_e0 | hetalt | 0.0000 | 44.4444 | 0.0000 | 0.0000 | 4 | 5 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | tech_badpromoters | homalt | 93.1507 | 87.1795 | 100.0000 | 36.5385 | 34 | 5 | 33 | 0 | 0 | ||
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.7788 | 99.3179 | 98.2456 | 73.2684 | 728 | 5 | 728 | 13 | 13 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 85.5072 | 98.6072 | 75.4797 | 48.5181 | 354 | 5 | 354 | 115 | 114 | 99.1304 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.6744 | 99.4583 | 99.8915 | 29.8859 | 918 | 5 | 921 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 90.0979 | 90.1961 | 90.0000 | 90.0398 | 46 | 5 | 45 | 5 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m1_e0 | hetalt | 92.9362 | 88.6364 | 97.6744 | 92.8808 | 39 | 5 | 42 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m2_e0 | hetalt | 92.9362 | 88.6364 | 97.6744 | 93.3846 | 39 | 5 | 42 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m2_e1 | hetalt | 93.0988 | 88.8889 | 97.7273 | 93.3333 | 40 | 5 | 43 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_siren | hetalt | 97.2768 | 95.5357 | 99.0826 | 91.7674 | 107 | 5 | 108 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.7368 | 97.1751 | 98.3051 | 65.9615 | 172 | 5 | 174 | 3 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.1262 | 97.3404 | 98.9247 | 61.8070 | 183 | 5 | 184 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.3617 | 97.6852 | 99.0476 | 60.3025 | 211 | 5 | 208 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | map_l100_m1_e0 | het | 94.7049 | 91.5254 | 98.1132 | 74.6411 | 54 | 5 | 52 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | map_l100_m2_e0 | het | 94.8855 | 91.8033 | 98.1818 | 76.4957 | 56 | 5 | 54 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | map_l100_m2_e1 | het | 94.8855 | 91.8033 | 98.1818 | 76.8908 | 56 | 5 | 54 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | map_l125_m1_e0 | * | 94.0775 | 90.5660 | 97.8723 | 85.5385 | 48 | 5 | 46 | 1 | 0 | 0.0000 | |