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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
1951-2000 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | I6_15 | segdup | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 9 | 36 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | segdup | homalt | 59.8909 | 80.8511 | 47.5610 | 87.6506 | 38 | 9 | 39 | 43 | 42 | 97.6744 | |
| anovak-vg | INDEL | I6_15 | segdupwithalt | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| anovak-vg | INDEL | I6_15 | segdupwithalt | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| anovak-vg | INDEL | I6_15 | segdupwithalt | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | INDEL | I6_15 | segdupwithalt | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| anovak-vg | INDEL | I6_15 | tech_badpromoters | * | 57.1429 | 46.1538 | 75.0000 | 50.0000 | 6 | 7 | 6 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | I6_15 | tech_badpromoters | het | 25.0000 | 14.2857 | 100.0000 | 40.0000 | 1 | 6 | 3 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | tech_badpromoters | hetalt | 0.0000 | 66.6667 | 0.0000 | 0.0000 | 2 | 1 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | tech_badpromoters | homalt | 75.0000 | 100.0000 | 60.0000 | 54.5455 | 3 | 0 | 3 | 2 | 2 | 100.0000 | |
| anovak-vg | SNP | * | * | * | 98.4545 | 98.3357 | 98.5736 | 21.3437 | 3003796 | 50838 | 2987348 | 43227 | 18700 | 43.2600 | |
| anovak-vg | SNP | * | * | het | 98.0636 | 98.0936 | 98.0337 | 24.0083 | 1837883 | 35718 | 1828909 | 36684 | 13178 | 35.9230 | |
| anovak-vg | SNP | * | * | hetalt | 0.0000 | 14.4661 | 0.0000 | 0.0000 | 126 | 745 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | * | homalt | 99.1091 | 98.7819 | 99.4384 | 16.6644 | 1165787 | 14375 | 1158439 | 6543 | 5522 | 84.3955 | |
| anovak-vg | SNP | * | HG002complexvar | * | 97.6964 | 96.9184 | 98.4870 | 19.4533 | 731138 | 23247 | 712315 | 10943 | 8438 | 77.1087 | |
| anovak-vg | SNP | * | HG002complexvar | het | 97.3572 | 96.6062 | 98.1199 | 19.3647 | 449702 | 15798 | 439022 | 8412 | 6308 | 74.9881 | |
| anovak-vg | SNP | * | HG002complexvar | hetalt | 0.0000 | 15.8065 | 0.0000 | 0.0000 | 49 | 261 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | HG002complexvar | homalt | 98.2895 | 97.5091 | 99.0824 | 19.5966 | 281387 | 7188 | 273293 | 2531 | 2130 | 84.1565 | |
| anovak-vg | SNP | * | HG002compoundhet | * | 78.0620 | 76.6207 | 79.5586 | 43.6697 | 19785 | 6037 | 20297 | 5215 | 3696 | 70.8725 | |
| anovak-vg | SNP | * | HG002compoundhet | het | 78.0560 | 77.3875 | 78.7362 | 46.6128 | 10972 | 3206 | 12323 | 3328 | 2553 | 76.7127 | |
| anovak-vg | SNP | * | HG002compoundhet | hetalt | 0.0000 | 14.6172 | 0.0000 | 0.0000 | 126 | 736 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | HG002compoundhet | homalt | 80.7165 | 80.5695 | 80.8640 | 38.2684 | 8687 | 2095 | 7974 | 1887 | 1143 | 60.5723 | |
| anovak-vg | SNP | * | decoy | * | 0.0000 | 0.0000 | 50.0000 | 99.9991 | 0 | 0 | 1 | 1 | 1 | 100.0000 | |
| anovak-vg | SNP | * | decoy | het | 0.0000 | 0.0000 | 99.9995 | 0 | 0 | 0 | 1 | 1 | 100.0000 | ||
| anovak-vg | SNP | * | decoy | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | * | decoy | homalt | 0.0000 | 0.0000 | 100.0000 | 99.9974 | 0 | 0 | 1 | 0 | 0 | ||
| anovak-vg | SNP | * | func_cds | * | 98.5581 | 98.0331 | 99.0887 | 29.8522 | 17793 | 357 | 17724 | 163 | 111 | 68.0982 | |
| anovak-vg | SNP | * | func_cds | het | 98.2393 | 97.5540 | 98.9342 | 34.7247 | 10888 | 273 | 10861 | 117 | 70 | 59.8291 | |
| anovak-vg | SNP | * | func_cds | hetalt | 0.0000 | 30.0000 | 0.0000 | 0.0000 | 3 | 7 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | func_cds | homalt | 99.1150 | 98.8967 | 99.3342 | 20.4124 | 6902 | 77 | 6863 | 46 | 41 | 89.1304 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.1744 | 93.3669 | 91.0119 | 70.2375 | 4448 | 316 | 4506 | 445 | 188 | 42.2472 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 90.2601 | 92.3740 | 88.2408 | 73.6079 | 2786 | 230 | 2844 | 379 | 139 | 36.6755 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6272 | 95.0801 | 96.1806 | 60.9315 | 1662 | 86 | 1662 | 66 | 49 | 74.2424 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| anovak-vg | SNP | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| anovak-vg | SNP | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.1202 | 97.0035 | 95.2529 | 60.1354 | 53964 | 1667 | 55240 | 2753 | 1338 | 48.6015 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.3736 | 96.4849 | 94.2876 | 62.2229 | 34174 | 1245 | 35108 | 2127 | 869 | 40.8557 | |
| 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_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.4699 | 97.9603 | 96.9843 | 55.7493 | 19787 | 412 | 20132 | 626 | 469 | 74.9201 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 90.4686 | 92.4642 | 88.5573 | 75.8297 | 42258 | 3444 | 42999 | 5556 | 1706 | 30.7055 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.8643 | 91.4147 | 84.5794 | 78.5110 | 26247 | 2465 | 26903 | 4905 | 1242 | 25.3211 | |
| 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 | homalt | 95.1935 | 94.2916 | 96.1127 | 68.3224 | 16006 | 969 | 16096 | 651 | 464 | 71.2750 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.7578 | 95.2969 | 96.2233 | 58.1854 | 4093 | 202 | 4102 | 161 | 85 | 52.7950 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.9595 | 94.7878 | 95.1319 | 62.5104 | 2546 | 140 | 2560 | 131 | 60 | 45.8015 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.1094 | 96.1467 | 98.0916 | 47.8953 | 1547 | 62 | 1542 | 30 | 25 | 83.3333 | |