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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63651-63700 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 35 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 35 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e1 | hetalt | 31.8584 | 22.2222 | 56.2500 | 98.1672 | 10 | 35 | 9 | 7 | 4 | 57.1429 | |
| gduggal-snapplat | INDEL | I6_15 | func_cds | * | 29.0909 | 18.6047 | 66.6667 | 47.8261 | 8 | 35 | 8 | 4 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 0.0000 | 0.0000 | 79.2453 | 0 | 35 | 0 | 11 | 0 | 0.0000 | ||
| gduggal-snapvard | INDEL | D6_15 | map_l125_m1_e0 | * | 71.3819 | 70.0855 | 72.7273 | 85.2349 | 82 | 35 | 128 | 48 | 32 | 66.6667 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 35 | 0 | 0 | 0 | |||
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 100.0000 | 50.0000 | 0 | 35 | 1 | 0 | 0 | ||
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 87.8412 | 97.4766 | 79.9394 | 76.0835 | 1352 | 35 | 1319 | 331 | 6 | 1.8127 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 57.1133 | 40.6780 | 95.8333 | 48.9362 | 24 | 35 | 23 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.2011 | 99.6842 | 98.7226 | 58.1229 | 11049 | 35 | 11052 | 143 | 20 | 13.9860 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e0 | het | 82.4377 | 96.1369 | 72.1557 | 91.9661 | 871 | 35 | 1205 | 465 | 145 | 31.1828 | |
| gduggal-snapvard | INDEL | * | tech_badpromoters | * | 57.9096 | 53.9474 | 62.5000 | 60.5381 | 41 | 35 | 55 | 33 | 24 | 72.7273 | |
| 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 | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5441 | 97.3505 | 99.7673 | 60.9276 | 1286 | 35 | 1286 | 3 | 1 | 33.3333 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.4079 | 99.8008 | 97.0534 | 66.9969 | 17533 | 35 | 17523 | 532 | 19 | 3.5714 | |
| jlack-gatk | SNP | tv | map_l150_m0_e0 | homalt | 98.4393 | 97.3645 | 99.5381 | 76.5184 | 1293 | 35 | 1293 | 6 | 4 | 66.6667 | |
| jli-custom | INDEL | * | map_l125_m1_e0 | * | 98.5968 | 98.3389 | 98.8561 | 85.7695 | 2072 | 35 | 2074 | 24 | 8 | 33.3333 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.4861 | 99.5813 | 99.3911 | 58.2577 | 8325 | 35 | 8325 | 51 | 50 | 98.0392 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 76.5101 | 61.9565 | 100.0000 | 60.4167 | 57 | 35 | 57 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.5327 | 99.1851 | 99.8828 | 53.0235 | 4260 | 35 | 4260 | 5 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 84.0467 | 75.5245 | 94.7368 | 93.3255 | 108 | 35 | 108 | 6 | 1 | 16.6667 | |
| hfeng-pmm3 | SNP | * | map_l250_m0_e0 | * | 98.2916 | 98.3607 | 98.2226 | 92.8676 | 2100 | 35 | 2100 | 38 | 6 | 15.7895 | |
| hfeng-pmm3 | SNP | ti | map_l250_m1_e0 | het | 98.8707 | 98.8208 | 98.9207 | 89.0542 | 2933 | 35 | 2933 | 32 | 3 | 9.3750 | |
| hfeng-pmm3 | SNP | ti | map_l250_m2_e0 | het | 98.9700 | 98.9244 | 99.0157 | 89.3221 | 3219 | 35 | 3219 | 32 | 3 | 9.3750 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.3150 | 97.0389 | 84.4624 | 59.0100 | 1147 | 35 | 1147 | 211 | 208 | 98.5782 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5542 | 99.4802 | 99.6283 | 49.3638 | 6698 | 35 | 6700 | 25 | 14 | 56.0000 | |
| jlack-gatk | INDEL | * | map_l100_m0_e0 | * | 93.6372 | 97.7607 | 89.8474 | 89.5254 | 1528 | 35 | 1531 | 173 | 12 | 6.9364 | |
| hfeng-pmm2 | SNP | * | map_l100_m1_e0 | homalt | 99.8648 | 99.8704 | 99.8593 | 60.9853 | 26968 | 35 | 26968 | 38 | 19 | 50.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e0 | homalt | 99.8674 | 99.8728 | 99.8619 | 63.3992 | 27488 | 35 | 27488 | 38 | 19 | 50.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e1 | homalt | 99.8687 | 99.8741 | 99.8633 | 63.3911 | 27761 | 35 | 27761 | 38 | 19 | 50.0000 | |
| hfeng-pmm2 | SNP | ti | map_l250_m1_e0 | het | 98.2909 | 98.8208 | 97.7667 | 90.5159 | 2933 | 35 | 2933 | 67 | 7 | 10.4478 | |
| hfeng-pmm2 | SNP | ti | map_l250_m2_e0 | het | 98.4404 | 98.9244 | 97.9610 | 90.8174 | 3219 | 35 | 3219 | 67 | 7 | 10.4478 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e1 | * | 98.5832 | 98.4270 | 98.7399 | 86.2184 | 2190 | 35 | 2194 | 28 | 6 | 21.4286 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.4861 | 99.5813 | 99.3911 | 58.2577 | 8325 | 35 | 8325 | 51 | 50 | 98.0392 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.7203 | 94.2529 | 95.1923 | 81.7287 | 574 | 35 | 495 | 25 | 17 | 68.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.8547 | 94.6154 | 99.2026 | 23.5366 | 615 | 35 | 622 | 5 | 5 | 100.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.7169 | 95.5357 | 100.0000 | 32.6547 | 749 | 35 | 827 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.6866 | 94.7447 | 98.7097 | 85.9283 | 631 | 35 | 612 | 8 | 2 | 25.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.6866 | 94.7447 | 98.7097 | 85.9283 | 631 | 35 | 612 | 8 | 2 | 25.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4015 | 97.3724 | 99.4527 | 70.1934 | 1297 | 35 | 1272 | 7 | 5 | 71.4286 | |
| raldana-dualsentieon | SNP | tv | HG002complexvar | homalt | 99.9758 | 99.9632 | 99.9884 | 22.8157 | 95076 | 35 | 95070 | 11 | 9 | 81.8182 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7358 | 99.5014 | 99.9714 | 60.2855 | 6984 | 35 | 6981 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4032 | 98.9855 | 99.8245 | 35.5338 | 3415 | 35 | 3412 | 6 | 2 | 33.3333 | |
| rpoplin-dv42 | INDEL | * | map_l150_m1_e0 | * | 97.8620 | 97.3842 | 98.3446 | 98.9844 | 1303 | 35 | 1307 | 22 | 10 | 45.4545 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8164 | 99.6701 | 99.9632 | 59.9499 | 10875 | 36 | 10872 | 4 | 3 | 75.0000 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e0 | * | 97.9323 | 97.4432 | 98.4263 | 99.0377 | 1372 | 36 | 1376 | 22 | 10 | 45.4545 | |
| rpoplin-dv42 | INDEL | * | segdup | * | 98.8630 | 98.5915 | 99.1359 | 99.1675 | 2520 | 36 | 2524 | 22 | 21 | 95.4545 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7968 | 99.7563 | 99.8374 | 54.8306 | 14734 | 36 | 14736 | 24 | 17 | 70.8333 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 93.8667 | 90.7216 | 97.2376 | 69.9834 | 352 | 36 | 352 | 10 | 9 | 90.0000 | |