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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
55251-55300 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | I1_5 | map_l150_m0_e0 | * | 93.2137 | 94.3182 | 92.1348 | 92.6899 | 166 | 10 | 164 | 14 | 4 | 28.5714 | |
| gduggal-snapplat | INDEL | D1_5 | map_l250_m0_e0 | * | 82.6230 | 78.2609 | 87.5000 | 98.7626 | 36 | 10 | 42 | 6 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D6_15 | map_l250_m1_e0 | het | 16.6667 | 9.0909 | 100.0000 | 99.5495 | 1 | 10 | 1 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I6_15 | tech_badpromoters | * | 33.3333 | 23.0769 | 60.0000 | 66.6667 | 3 | 10 | 3 | 2 | 0 | 0.0000 | |
| anovak-vg | INDEL | I1_5 | map_l125_m0_e0 | homalt | 66.4001 | 91.2281 | 52.1951 | 85.4403 | 104 | 10 | 107 | 98 | 91 | 92.8571 | |
| anovak-vg | INDEL | I1_5 | map_l125_m1_e0 | hetalt | 0.0000 | 41.1765 | 0.0000 | 0.0000 | 7 | 10 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l250_m0_e0 | * | 54.6638 | 58.3333 | 51.4286 | 98.2952 | 14 | 10 | 18 | 17 | 10 | 58.8235 | |
| anovak-vg | INDEL | I1_5 | tech_badpromoters | * | 63.6735 | 54.5455 | 76.4706 | 51.4286 | 12 | 10 | 13 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 76.2700 | 83.0508 | 70.5128 | 33.8983 | 49 | 10 | 110 | 46 | 45 | 97.8261 | |
| anovak-vg | INDEL | I6_15 | map_l100_m0_e0 | het | 50.0000 | 41.1765 | 63.6364 | 87.5706 | 7 | 10 | 14 | 8 | 1 | 12.5000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m1_e0 | * | 61.4458 | 60.0000 | 62.9630 | 91.0299 | 15 | 10 | 17 | 10 | 2 | 20.0000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m2_e0 | * | 61.4458 | 60.0000 | 62.9630 | 92.1283 | 15 | 10 | 17 | 10 | 2 | 20.0000 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 23.0769 | 0.0000 | 0.0000 | 3 | 10 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 5 | 10 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 5 | 10 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 63.1476 | 62.9630 | 63.3333 | 96.0159 | 17 | 10 | 19 | 11 | 7 | 63.6364 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 77.5000 | 75.6098 | 79.4872 | 90.6475 | 31 | 10 | 31 | 8 | 5 | 62.5000 | |
| anovak-vg | SNP | * | map_l100_m0_e0 | hetalt | 0.0000 | 37.5000 | 0.0000 | 0.0000 | 6 | 10 | 0 | 0 | 0 | ||
| 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 | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 73.8636 | 71.4286 | 76.4706 | 89.6024 | 25 | 10 | 26 | 8 | 5 | 62.5000 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 23.0769 | 0.0000 | 0.0000 | 3 | 10 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 5 | 10 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.4648 | 98.0952 | 98.8372 | 65.8730 | 515 | 10 | 510 | 6 | 3 | 50.0000 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 5 | 10 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l100_m0_e0 | hetalt | 0.0000 | 37.5000 | 0.0000 | 0.0000 | 6 | 10 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8291 | 99.8805 | 97.7996 | 55.4001 | 8356 | 10 | 8356 | 188 | 186 | 98.9362 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 96.1232 | 95.4955 | 96.7593 | 64.9351 | 212 | 10 | 209 | 7 | 4 | 57.1429 | |
| astatham-gatk | INDEL | * | map_l250_m1_e0 | * | 95.1613 | 96.7213 | 93.6508 | 96.0377 | 295 | 10 | 295 | 20 | 4 | 20.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m0_e0 | homalt | 92.6076 | 88.2353 | 97.4359 | 91.4191 | 75 | 10 | 76 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_siren | homalt | 95.2381 | 92.3077 | 98.3607 | 84.5178 | 120 | 10 | 120 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.8272 | 88.3721 | 100.0000 | 76.0000 | 76 | 10 | 102 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.8316 | 94.3820 | 99.4118 | 82.3468 | 168 | 10 | 169 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 90.7407 | 83.0508 | 100.0000 | 71.4912 | 49 | 10 | 65 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6553 | 94.0476 | 99.4118 | 79.9292 | 158 | 10 | 169 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_siren | * | 91.5949 | 88.3721 | 95.0617 | 93.1761 | 76 | 10 | 77 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.3694 | 98.9529 | 99.7895 | 80.5964 | 945 | 10 | 948 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 94.1755 | 98.4686 | 90.2411 | 69.2008 | 643 | 10 | 786 | 85 | 83 | 97.6471 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.5309 | 93.0070 | 74.1758 | 91.4794 | 133 | 10 | 135 | 47 | 3 | 6.3830 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.6772 | 97.3890 | 100.0000 | 83.6726 | 373 | 10 | 377 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l150_m1_e0 | hetalt | 50.0000 | 33.3333 | 100.0000 | 90.7407 | 5 | 10 | 5 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l150_m2_e0 | hetalt | 50.0000 | 33.3333 | 100.0000 | 92.7536 | 5 | 10 | 5 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l150_m2_e1 | hetalt | 50.0000 | 33.3333 | 100.0000 | 92.7536 | 5 | 10 | 5 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.2414 | 93.9394 | 94.5455 | 90.9836 | 155 | 10 | 156 | 9 | 2 | 22.2222 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2332 | 99.8240 | 96.6922 | 56.9130 | 5671 | 10 | 5671 | 194 | 193 | 99.4845 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e0 | het | 98.5784 | 99.2038 | 97.9608 | 84.7707 | 1246 | 10 | 1249 | 26 | 4 | 15.3846 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e1 | het | 98.5917 | 99.2114 | 97.9798 | 84.8890 | 1258 | 10 | 1261 | 26 | 4 | 15.3846 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4556 | 99.3958 | 99.5154 | 60.4361 | 1645 | 10 | 1643 | 8 | 5 | 62.5000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m2_e0 | * | 96.2121 | 96.2121 | 96.2121 | 87.5589 | 254 | 10 | 254 | 10 | 2 | 20.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7711 | 88.5057 | 97.4684 | 84.9810 | 77 | 10 | 77 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002complexvar | homalt | 99.8440 | 99.9256 | 99.7625 | 52.9997 | 13438 | 10 | 13443 | 32 | 31 | 96.8750 | |