PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68301-68350 / 86044 show all | |||||||||||||||
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 87.4326 | 96.2516 | 80.0940 | 76.2162 | 3030 | 118 | 3066 | 762 | 11 | 1.4436 | |
| ghariani-varprowl | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.4227 | 98.4802 | 90.6863 | 72.2353 | 17301 | 267 | 17390 | 1786 | 11 | 0.6159 | |
| ghariani-varprowl | SNP | tv | map_l100_m0_e0 | homalt | 98.6901 | 97.9459 | 99.4456 | 67.1380 | 3767 | 79 | 3767 | 21 | 11 | 52.3810 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.0245 | 92.0752 | 98.1691 | 77.4877 | 1127 | 97 | 1126 | 21 | 11 | 52.3810 | |
| gduggal-snapplat | SNP | ti | map_l100_m0_e0 | homalt | 93.7346 | 88.3329 | 99.8399 | 63.4054 | 6867 | 907 | 6860 | 11 | 11 | 100.0000 | |
| gduggal-snapplat | SNP | ti | segdup | het | 98.8353 | 98.7116 | 98.9593 | 94.3052 | 11875 | 155 | 11886 | 125 | 11 | 8.8000 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 78.3315 | 84.6966 | 72.8563 | 89.5793 | 1284 | 232 | 1283 | 478 | 11 | 2.3013 | |
| gduggal-snapvard | INDEL | * | map_l125_m1_e0 | homalt | 92.3976 | 87.0219 | 98.4813 | 80.4522 | 637 | 95 | 843 | 13 | 11 | 84.6154 | |
| gduggal-snapvard | INDEL | * | map_l125_m2_e0 | homalt | 92.4285 | 87.0249 | 98.5475 | 81.2093 | 664 | 99 | 882 | 13 | 11 | 84.6154 | |
| gduggal-snapvard | INDEL | * | map_l125_m2_e1 | homalt | 92.3972 | 86.9509 | 98.5714 | 81.2719 | 673 | 101 | 897 | 13 | 11 | 84.6154 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 21.0702 | 87.1009 | 0 | 0 | 63 | 236 | 11 | 4.6610 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 17.3913 | 86.6667 | 0 | 0 | 16 | 76 | 11 | 14.4737 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 16.6667 | 86.1751 | 0 | 0 | 15 | 75 | 11 | 14.6667 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.1370 | 97.3361 | 96.9388 | 70.2670 | 475 | 13 | 475 | 15 | 11 | 73.3333 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3527 | 98.8800 | 99.8300 | 48.5551 | 11742 | 133 | 11747 | 20 | 11 | 55.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002complexvar | het | 99.4756 | 99.0819 | 99.8724 | 57.6818 | 18022 | 167 | 18002 | 23 | 11 | 47.8261 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.8835 | 96.7762 | 99.0164 | 72.2070 | 1561 | 52 | 1510 | 15 | 11 | 73.3333 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.8606 | 96.0047 | 99.7897 | 49.8726 | 5695 | 237 | 5695 | 12 | 11 | 91.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.2057 | 97.3566 | 99.0698 | 75.6937 | 2394 | 65 | 2343 | 22 | 11 | 50.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.5423 | 89.2344 | 98.2872 | 66.4011 | 746 | 90 | 746 | 13 | 11 | 84.6154 | |
| hfeng-pmm2 | SNP | * | HG002compoundhet | homalt | 99.8887 | 99.8887 | 99.8887 | 35.3481 | 10770 | 12 | 10770 | 12 | 11 | 91.6667 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.5772 | 99.8940 | 99.2624 | 72.0923 | 1884 | 2 | 1884 | 14 | 11 | 78.5714 | |
| jlack-gatk | INDEL | * | map_l150_m2_e1 | * | 93.6441 | 98.0542 | 89.6137 | 92.6184 | 1411 | 28 | 1415 | 164 | 11 | 6.7073 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3167 | 99.5384 | 99.0960 | 53.8093 | 6685 | 31 | 6687 | 61 | 11 | 18.0328 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 95.2221 | 98.5390 | 92.1212 | 86.6783 | 1821 | 27 | 1824 | 156 | 11 | 7.0513 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 95.2850 | 98.5379 | 92.2401 | 87.2851 | 1887 | 28 | 1890 | 159 | 11 | 6.9182 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m2_e1 | * | 95.2916 | 98.5044 | 92.2817 | 87.3451 | 1910 | 29 | 1913 | 160 | 11 | 6.8750 | |
| jlack-gatk | INDEL | D1_5 | map_siren | het | 95.7195 | 99.4730 | 92.2389 | 84.5589 | 2265 | 12 | 2270 | 191 | 11 | 5.7592 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 79.3103 | 100.0000 | 65.7143 | 87.1324 | 23 | 0 | 23 | 12 | 11 | 91.6667 | |
| hfeng-pmm1 | SNP | * | HG002compoundhet | homalt | 99.9026 | 99.9073 | 99.8980 | 34.9324 | 10772 | 10 | 10772 | 11 | 11 | 100.0000 | |
| hfeng-pmm1 | SNP | * | map_l150_m0_e0 | het | 98.8251 | 98.5390 | 99.1129 | 80.9036 | 7824 | 116 | 7821 | 70 | 11 | 15.7143 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e0 | het | 98.5614 | 98.2672 | 98.8573 | 88.7531 | 5104 | 90 | 5104 | 59 | 11 | 18.6441 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e1 | het | 98.5612 | 98.2523 | 98.8721 | 88.8393 | 5172 | 92 | 5172 | 59 | 11 | 18.6441 | |
| hfeng-pmm1 | SNP | * | segdup | * | 99.7400 | 99.7934 | 99.6867 | 89.3409 | 28009 | 58 | 28003 | 88 | 11 | 12.5000 | |
| hfeng-pmm1 | SNP | * | segdup | homalt | 99.9256 | 99.9535 | 99.8977 | 88.8973 | 10738 | 5 | 10738 | 11 | 11 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | HG002complexvar | homalt | 99.9763 | 99.9664 | 99.9863 | 22.9407 | 95079 | 32 | 95072 | 13 | 11 | 84.6154 | |
| hfeng-pmm1 | SNP | tv | map_l100_m0_e0 | het | 99.2295 | 98.9754 | 99.4850 | 70.4702 | 7148 | 74 | 7147 | 37 | 11 | 29.7297 | |
| hfeng-pmm1 | SNP | tv | map_l125_m1_e0 | het | 99.2869 | 99.0026 | 99.5728 | 70.2971 | 10025 | 101 | 10023 | 43 | 11 | 25.5814 | |
| hfeng-pmm1 | SNP | tv | map_l125_m2_e0 | het | 99.3085 | 99.0328 | 99.5858 | 71.6339 | 10341 | 101 | 10339 | 43 | 11 | 25.5814 | |
| hfeng-pmm1 | SNP | tv | map_l125_m2_e1 | het | 99.3110 | 99.0335 | 99.5902 | 71.6922 | 10451 | 102 | 10449 | 43 | 11 | 25.5814 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.9007 | 95.1331 | 98.7352 | 48.1982 | 1251 | 64 | 1249 | 16 | 11 | 68.7500 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.2888 | 95.8808 | 98.7387 | 78.3161 | 1094 | 47 | 1096 | 14 | 11 | 78.5714 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.9072 | 100.0000 | 94.0000 | 65.5766 | 188 | 0 | 188 | 12 | 11 | 91.6667 | |
| hfeng-pmm3 | SNP | * | map_l100_m0_e0 | het | 99.3509 | 99.2596 | 99.4424 | 70.0348 | 21048 | 157 | 21044 | 118 | 11 | 9.3220 | |
| hfeng-pmm3 | SNP | ti | map_l125_m0_e0 | * | 99.3611 | 99.3183 | 99.4039 | 74.1190 | 12675 | 87 | 12673 | 76 | 11 | 14.4737 | |
| hfeng-pmm3 | SNP | ti | map_siren | het | 99.6838 | 99.5672 | 99.8007 | 53.2950 | 62112 | 270 | 62103 | 124 | 11 | 8.8710 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.2076 | 96.0561 | 98.3871 | 78.6982 | 1096 | 45 | 1098 | 18 | 11 | 61.1111 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3261 | 97.7936 | 98.8644 | 77.1834 | 1507 | 34 | 1480 | 17 | 11 | 64.7059 | |
| jlack-gatk | SNP | * | * | hetalt | 99.0280 | 99.4259 | 98.6333 | 53.8866 | 866 | 5 | 866 | 12 | 11 | 91.6667 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7048 | 99.4757 | 99.9349 | 66.5658 | 16886 | 89 | 16886 | 11 | 11 | 100.0000 | |