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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
49301-49350 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 86.4727 | 80.3922 | 93.5484 | 94.4840 | 41 | 10 | 29 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.4393 | 99.6255 | 99.2537 | 63.5870 | 266 | 1 | 266 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l125_m0_e0 | het | 98.4320 | 97.9167 | 98.9529 | 88.7448 | 188 | 4 | 189 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l150_m0_e0 | homalt | 98.5294 | 100.0000 | 97.1014 | 86.8821 | 67 | 0 | 67 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l250_m1_e0 | het | 95.7983 | 95.0000 | 96.6102 | 96.0482 | 57 | 3 | 57 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l250_m1_e0 | homalt | 97.7778 | 100.0000 | 95.6522 | 92.9339 | 44 | 0 | 44 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l250_m2_e0 | het | 96.1832 | 95.4545 | 96.9231 | 96.2165 | 63 | 3 | 63 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l250_m2_e0 | homalt | 97.8261 | 100.0000 | 95.7447 | 93.9666 | 45 | 0 | 45 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l250_m2_e1 | het | 96.1832 | 95.4545 | 96.9231 | 96.3401 | 63 | 3 | 63 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l250_m2_e1 | homalt | 97.8723 | 100.0000 | 95.8333 | 94.0000 | 46 | 0 | 46 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | segdup | homalt | 99.5772 | 99.5772 | 99.5772 | 92.3820 | 471 | 2 | 471 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | * | hetalt | 96.4340 | 93.1353 | 99.9750 | 38.6184 | 7964 | 587 | 8004 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2518 | 96.9828 | 99.5546 | 70.6344 | 450 | 14 | 447 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | map_siren | homalt | 97.7778 | 97.7778 | 97.7778 | 83.4254 | 88 | 2 | 88 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6272 | 99.3707 | 99.8850 | 65.1363 | 1737 | 11 | 1737 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6756 | 99.3855 | 99.9675 | 53.7536 | 6146 | 38 | 6146 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5146 | 99.0842 | 99.9487 | 54.1691 | 3895 | 36 | 3895 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9671 | 99.9671 | 99.9671 | 54.5909 | 6086 | 2 | 6086 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7001 | 99.4290 | 99.9726 | 32.1925 | 7313 | 42 | 7309 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9452 | 99.9635 | 99.9270 | 31.7808 | 2737 | 1 | 2737 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6875 | 99.4266 | 99.9499 | 46.9556 | 3988 | 23 | 3988 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5463 | 99.1745 | 99.9208 | 47.8198 | 2523 | 21 | 2523 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.8206 | 99.6928 | 99.9487 | 29.2204 | 3894 | 12 | 3893 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9300 | 100.0000 | 99.8600 | 29.0467 | 1427 | 0 | 1427 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.4729 | 95.2621 | 99.7888 | 69.4023 | 945 | 47 | 945 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8061 | 99.6496 | 99.9630 | 75.1151 | 5404 | 19 | 5404 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.7690 | 82.4242 | 98.5507 | 91.0273 | 136 | 29 | 136 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 86.9955 | 78.2258 | 97.9798 | 90.7216 | 97 | 27 | 97 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8061 | 99.6496 | 99.9630 | 75.1151 | 5404 | 19 | 5404 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8394 | 99.6976 | 99.9816 | 59.7625 | 10878 | 33 | 10875 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9456 | 99.9637 | 99.9275 | 37.1096 | 2757 | 1 | 2757 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | map_l250_m0_e0 | homalt | 94.1176 | 96.0000 | 92.3077 | 96.9376 | 24 | 1 | 24 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | HG002complexvar | homalt | 99.1334 | 98.9619 | 99.3056 | 74.5133 | 286 | 3 | 286 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 80.0000 | 100.0000 | 66.6667 | 98.9583 | 4 | 0 | 4 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6156 | 99.4518 | 99.7800 | 65.1991 | 907 | 5 | 907 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 80.0000 | 100.0000 | 66.6667 | 98.9305 | 4 | 0 | 4 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.3065 | 99.1690 | 99.4444 | 61.2487 | 358 | 3 | 358 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.2565 | 99.2593 | 99.2537 | 60.8759 | 268 | 2 | 266 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.3523 | 89.5265 | 99.7279 | 38.0270 | 624 | 73 | 733 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6223 | 93.5683 | 99.8824 | 33.7490 | 1513 | 104 | 1698 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5605 | 93.4506 | 99.8846 | 36.0517 | 1541 | 108 | 1731 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.0909 | 96.7581 | 99.4609 | 78.0343 | 388 | 13 | 369 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l125_m0_e0 | * | 92.3077 | 100.0000 | 85.7143 | 95.3177 | 12 | 0 | 12 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l125_m0_e0 | het | 90.0000 | 100.0000 | 81.8182 | 94.7619 | 9 | 0 | 9 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l150_m0_e0 | * | 87.5000 | 100.0000 | 77.7778 | 95.2381 | 7 | 0 | 7 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l150_m0_e0 | het | 87.5000 | 100.0000 | 77.7778 | 93.4307 | 7 | 0 | 7 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l150_m1_e0 | het | 93.3333 | 100.0000 | 87.5000 | 93.4959 | 14 | 0 | 14 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l250_m0_e0 | * | 50.0000 | 100.0000 | 33.3333 | 95.3846 | 1 | 0 | 1 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l250_m0_e0 | het | 50.0000 | 100.0000 | 33.3333 | 93.8776 | 1 | 0 | 1 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l250_m1_e0 | * | 80.0000 | 100.0000 | 66.6667 | 95.5224 | 4 | 0 | 4 | 2 | 0 | 0.0000 | |