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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5801-5850 / 86044 show all | |||||||||||||||
| 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 | * | * | hetalt | 99.7131 | 99.7704 | 99.6560 | 48.7962 | 869 | 2 | 869 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | SNP | * | HG002compoundhet | homalt | 99.9026 | 99.9073 | 99.8980 | 34.9324 | 10772 | 10 | 10772 | 11 | 11 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6558 | 99.3707 | 99.9425 | 65.7132 | 1737 | 11 | 1737 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 92.3077 | 92.3077 | 92.3077 | 83.7500 | 12 | 1 | 12 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9381 | 99.9059 | 99.9703 | 56.7400 | 20180 | 19 | 20180 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8261 | 99.6816 | 99.9710 | 63.3120 | 3444 | 11 | 3444 | 1 | 1 | 100.0000 | |
| 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 | hetalt | 90.9091 | 100.0000 | 83.3333 | 66.6667 | 5 | 0 | 5 | 1 | 1 | 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 | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.2963 | 95.1220 | 97.5000 | 93.0314 | 39 | 2 | 39 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9452 | 99.9270 | 99.9635 | 32.6526 | 2736 | 2 | 2736 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | * | segdup | homalt | 99.9256 | 99.9535 | 99.8977 | 88.8973 | 10738 | 5 | 10738 | 11 | 11 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | * | hetalt | 99.5708 | 99.6564 | 99.4854 | 47.7130 | 580 | 2 | 580 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | HG002complexvar | homalt | 99.9845 | 99.9798 | 99.9891 | 18.4732 | 193424 | 39 | 193416 | 21 | 21 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | HG002compoundhet | homalt | 99.9392 | 99.9594 | 99.9189 | 30.5967 | 7391 | 3 | 7391 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 83.3333 | 83.3333 | 83.3333 | 87.7551 | 5 | 1 | 5 | 1 | 1 | 100.0000 | |
| 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 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8642 | 99.7447 | 99.9840 | 43.8336 | 6252 | 16 | 6252 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9318 | 99.9091 | 99.9545 | 42.4084 | 2199 | 2 | 2199 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 66.6667 | 100.0000 | 50.0000 | 77.7778 | 1 | 0 | 1 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 30.2053 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7647 | 99.7647 | 99.7647 | 48.5783 | 848 | 2 | 848 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2176 | 94.7037 | 99.8686 | 24.8766 | 751 | 42 | 760 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 96.7509 | 94.3662 | 99.2593 | 43.0380 | 134 | 8 | 134 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 91.3043 | 87.5000 | 95.4545 | 74.4186 | 21 | 3 | 21 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | segdup | homalt | 98.0392 | 100.0000 | 96.1538 | 91.9753 | 50 | 0 | 50 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | hetalt | 95.9205 | 92.4214 | 99.6950 | 58.3968 | 1939 | 159 | 1961 | 6 | 6 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | HG002complexvar | hetalt | 96.6649 | 94.3284 | 99.1202 | 69.9029 | 316 | 19 | 338 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | HG002compoundhet | het | 89.2228 | 87.2340 | 91.3043 | 94.7005 | 41 | 6 | 21 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | HG002compoundhet | hetalt | 96.0539 | 92.4510 | 99.9489 | 46.1750 | 1935 | 158 | 1955 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.7395 | 93.9966 | 99.6473 | 67.3951 | 548 | 35 | 565 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.0630 | 100.0000 | 92.4242 | 86.0759 | 122 | 0 | 122 | 10 | 10 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8846 | 94.2337 | 99.6890 | 71.2433 | 621 | 38 | 641 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.4401 | 91.7889 | 99.3939 | 60.5263 | 313 | 28 | 328 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.8559 | 92.6573 | 99.2832 | 57.2741 | 265 | 21 | 277 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.6170 | 100.0000 | 88.0000 | 87.0466 | 22 | 0 | 22 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.7829 | 92.3684 | 99.4595 | 64.7619 | 351 | 29 | 368 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8846 | 94.2337 | 99.6890 | 71.2433 | 621 | 38 | 641 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.5574 | 92.1147 | 99.2674 | 68.0702 | 257 | 22 | 271 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.2529 | 100.0000 | 89.1304 | 87.6011 | 41 | 0 | 41 | 5 | 5 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 95.8314 | 95.7447 | 95.9184 | 80.0813 | 45 | 2 | 47 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 80.0000 | 100.0000 | 66.6667 | 89.0909 | 4 | 0 | 4 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.9011 | 100.0000 | 97.8261 | 82.1705 | 45 | 0 | 45 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | map_siren | homalt | 95.2381 | 95.2381 | 95.2381 | 94.7631 | 20 | 1 | 20 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | * | hetalt | 97.2753 | 94.7119 | 99.9812 | 62.6532 | 10603 | 592 | 10662 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002complexvar | hetalt | 98.0250 | 96.2341 | 99.8839 | 71.1509 | 1661 | 65 | 1720 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002compoundhet | hetalt | 97.2799 | 94.7124 | 99.9906 | 57.4359 | 10586 | 591 | 10643 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.5157 | 97.8799 | 95.1890 | 68.7433 | 277 | 6 | 277 | 14 | 14 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.7593 | 99.5000 | 98.0296 | 59.8814 | 199 | 1 | 199 | 4 | 4 | 100.0000 | |