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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
55601-55650 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l100_m2_e0 | * | 90.6077 | 91.1111 | 90.1099 | 93.5046 | 82 | 8 | 82 | 9 | 2 | 22.2222 | |
| hfeng-pmm3 | INDEL | D16_PLUS | map_l100_m2_e0 | het | 89.7079 | 93.7500 | 86.0000 | 94.7917 | 45 | 3 | 43 | 7 | 2 | 28.5714 | |
| hfeng-pmm3 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 90.1554 | 89.6907 | 90.6250 | 93.3194 | 87 | 10 | 87 | 9 | 2 | 22.2222 | |
| hfeng-pmm3 | INDEL | D16_PLUS | map_l100_m2_e1 | het | 90.3067 | 94.1176 | 86.7925 | 94.6138 | 48 | 3 | 46 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3302 | 98.8571 | 99.8079 | 61.2435 | 1038 | 12 | 1039 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.4393 | 99.6255 | 99.2537 | 64.1232 | 266 | 1 | 266 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m0_e0 | * | 98.2193 | 97.7419 | 98.7013 | 87.8357 | 303 | 7 | 304 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m0_e0 | homalt | 98.7013 | 100.0000 | 97.4359 | 84.2530 | 114 | 0 | 114 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m1_e0 | * | 98.6079 | 98.0723 | 99.1495 | 84.7395 | 814 | 16 | 816 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 82.1429 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e0 | * | 98.5925 | 98.0163 | 99.1755 | 86.0408 | 840 | 17 | 842 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e0 | homalt | 99.5620 | 100.0000 | 99.1279 | 83.6268 | 341 | 0 | 341 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e1 | * | 98.6137 | 98.0460 | 99.1879 | 86.1881 | 853 | 17 | 855 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e1 | homalt | 99.5646 | 100.0000 | 99.1329 | 83.9219 | 343 | 0 | 343 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m0_e0 | * | 97.7044 | 96.5909 | 98.8439 | 91.2714 | 170 | 6 | 171 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m0_e0 | homalt | 98.5294 | 100.0000 | 97.1014 | 87.7660 | 67 | 0 | 67 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m1_e0 | * | 98.0147 | 97.4308 | 98.6056 | 88.2104 | 493 | 13 | 495 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m1_e0 | homalt | 99.2481 | 100.0000 | 98.5075 | 85.7548 | 198 | 0 | 198 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m2_e0 | * | 97.9658 | 97.3025 | 98.6381 | 89.4909 | 505 | 14 | 507 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m2_e0 | homalt | 99.2593 | 100.0000 | 98.5294 | 87.5686 | 201 | 0 | 201 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m2_e1 | * | 98.0120 | 97.3635 | 98.6692 | 89.5407 | 517 | 14 | 519 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m2_e1 | homalt | 99.2701 | 100.0000 | 98.5507 | 87.7078 | 204 | 0 | 204 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m1_e0 | * | 96.2264 | 96.2264 | 96.2264 | 95.4132 | 102 | 4 | 102 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m1_e0 | homalt | 97.7778 | 100.0000 | 95.6522 | 93.4097 | 44 | 0 | 44 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m2_e0 | * | 96.4602 | 96.4602 | 96.4602 | 95.8623 | 109 | 4 | 109 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m2_e0 | homalt | 97.8261 | 100.0000 | 95.7447 | 94.3713 | 45 | 0 | 45 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m2_e1 | * | 96.4912 | 96.4912 | 96.4912 | 95.9474 | 110 | 4 | 110 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m2_e1 | homalt | 97.8723 | 100.0000 | 95.8333 | 94.4121 | 46 | 0 | 46 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | segdup | * | 99.1501 | 99.0557 | 99.2446 | 94.2109 | 1049 | 10 | 1051 | 8 | 2 | 25.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | segdup | homalt | 99.5772 | 99.5772 | 99.5772 | 92.5664 | 471 | 2 | 471 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.8416 | 89.8876 | 98.1595 | 71.7504 | 160 | 18 | 160 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.2973 | 100.0000 | 94.7368 | 68.3333 | 36 | 0 | 36 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5452 | 97.4262 | 99.6902 | 60.4957 | 1287 | 34 | 1287 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5392 | 100.0000 | 99.0826 | 64.4372 | 216 | 0 | 216 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_siren | homalt | 98.3425 | 98.8889 | 97.8022 | 83.6331 | 89 | 1 | 89 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8455 | 99.7089 | 99.9825 | 55.0685 | 17127 | 50 | 17124 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9589 | 99.9507 | 99.9671 | 54.6457 | 6085 | 3 | 6085 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9703 | 99.9703 | 99.9703 | 36.7854 | 6743 | 2 | 6743 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | HG002compoundhet | het | 96.8662 | 93.9821 | 99.9329 | 37.3774 | 8933 | 572 | 8934 | 6 | 2 | 33.3333 | |
| hfeng-pmm1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9703 | 99.9604 | 99.9802 | 50.4100 | 10098 | 4 | 10098 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | map_l250_m0_e0 | homalt | 99.0847 | 99.3119 | 98.8584 | 92.1786 | 433 | 3 | 433 | 5 | 2 | 40.0000 | |
| hfeng-pmm1 | SNP | ti | map_l250_m1_e0 | homalt | 99.4712 | 99.5022 | 99.4403 | 86.8852 | 1599 | 8 | 1599 | 9 | 2 | 22.2222 | |
| hfeng-pmm1 | SNP | ti | map_l250_m2_e0 | homalt | 99.5141 | 99.5426 | 99.4857 | 87.7793 | 1741 | 8 | 1741 | 9 | 2 | 22.2222 | |
| hfeng-pmm1 | SNP | ti | map_l250_m2_e1 | homalt | 99.5205 | 99.5485 | 99.4924 | 87.8161 | 1764 | 8 | 1764 | 9 | 2 | 22.2222 | |
| hfeng-pmm1 | SNP | tv | HG002compoundhet | het | 94.3861 | 89.4072 | 99.9521 | 52.4903 | 4178 | 495 | 4176 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8339 | 99.7418 | 99.9261 | 75.6588 | 5409 | 14 | 5409 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8339 | 99.7418 | 99.9261 | 75.6588 | 5409 | 14 | 5409 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9275 | 99.9275 | 99.9275 | 37.0751 | 2756 | 2 | 2756 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m1_e0 | het | 98.1685 | 97.4818 | 98.8649 | 87.9315 | 1742 | 45 | 1742 | 20 | 2 | 10.0000 | |
| hfeng-pmm2 | INDEL | * | HG002compoundhet | hetalt | 96.9221 | 94.0429 | 99.9832 | 52.1234 | 23680 | 1500 | 23795 | 4 | 2 | 50.0000 | |