PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57201-57250 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e0 | homalt | 85.4395 | 75.6198 | 98.1900 | 87.8035 | 183 | 59 | 217 | 4 | 4 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | HG002compoundhet | hetalt | 79.5048 | 66.7941 | 98.1900 | 36.1641 | 1398 | 695 | 1085 | 20 | 16 | 80.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.3066 | 98.4234 | 98.1900 | 73.3092 | 437 | 7 | 434 | 8 | 4 | 50.0000 | |
| egarrison-hhga | INDEL | * | map_l125_m1_e0 | * | 97.9556 | 97.7219 | 98.1905 | 98.1653 | 2059 | 48 | 2062 | 38 | 14 | 36.8421 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3984 | 98.6070 | 98.1907 | 77.5143 | 6017 | 85 | 6024 | 111 | 100 | 90.0901 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m2_e1 | * | 98.0898 | 97.9887 | 98.1912 | 83.7299 | 1900 | 39 | 1900 | 35 | 13 | 37.1429 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1956 | 90.5120 | 98.1916 | 59.9330 | 3606 | 378 | 3638 | 67 | 32 | 47.7612 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.2270 | 94.3394 | 98.1917 | 57.1762 | 7933 | 476 | 7928 | 146 | 103 | 70.5479 | |
| ckim-isaac | INDEL | * | map_l125_m0_e0 | * | 75.7650 | 61.6780 | 98.1917 | 90.2709 | 544 | 338 | 543 | 10 | 2 | 20.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m1_e0 | * | 98.1894 | 98.1869 | 98.1919 | 88.2765 | 704 | 13 | 706 | 13 | 6 | 46.1538 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.4591 | 98.7277 | 98.1920 | 68.0700 | 3492 | 45 | 16727 | 308 | 247 | 80.1948 | |
| ghariani-varprowl | SNP | ti | map_l100_m2_e1 | * | 98.6004 | 99.0118 | 98.1924 | 70.8832 | 48996 | 489 | 48998 | 902 | 186 | 20.6208 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.7781 | 95.4039 | 98.1926 | 71.9618 | 2823 | 136 | 2825 | 52 | 3 | 5.7692 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.7577 | 99.3291 | 98.1927 | 66.2045 | 12437 | 84 | 12279 | 226 | 215 | 95.1327 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.8078 | 84.4560 | 98.1928 | 91.2540 | 326 | 60 | 326 | 6 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m0_e0 | homalt | 98.7879 | 99.3902 | 98.1928 | 89.9819 | 163 | 1 | 163 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.7674 | 91.5730 | 98.1928 | 70.8260 | 163 | 15 | 163 | 3 | 2 | 66.6667 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m1_e0 | homalt | 86.1830 | 76.7908 | 98.1928 | 83.9614 | 268 | 81 | 326 | 6 | 6 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | map_l100_m2_e1 | het | 97.6853 | 97.1831 | 98.1928 | 83.5574 | 2277 | 66 | 2282 | 42 | 8 | 19.0476 | |
| ckim-gatk | INDEL | * | map_l150_m0_e0 | homalt | 98.7879 | 99.3902 | 98.1928 | 91.6917 | 163 | 1 | 163 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | * | * | 97.2529 | 96.3306 | 98.1932 | 70.5888 | 6143 | 234 | 6141 | 113 | 94 | 83.1858 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.0443 | 95.9215 | 98.1938 | 78.8174 | 635 | 27 | 598 | 11 | 7 | 63.6364 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.2172 | 86.9261 | 98.1941 | 63.7331 | 871 | 131 | 870 | 16 | 12 | 75.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6237 | 97.0597 | 98.1943 | 69.6107 | 3433 | 104 | 3426 | 63 | 42 | 66.6667 | |
| gduggal-bwafb | SNP | * | map_l125_m2_e1 | het | 98.4726 | 98.7517 | 98.1951 | 76.1869 | 29270 | 370 | 29270 | 538 | 123 | 22.8625 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.2920 | 98.3891 | 98.1951 | 74.4975 | 29989 | 491 | 29542 | 543 | 428 | 78.8214 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.2920 | 98.3891 | 98.1951 | 74.4975 | 29989 | 491 | 29542 | 543 | 428 | 78.8214 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e1 | * | 97.9512 | 97.7079 | 98.1958 | 98.2777 | 2174 | 51 | 2177 | 40 | 15 | 37.5000 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.7867 | 95.4172 | 98.1962 | 86.7315 | 812 | 39 | 871 | 16 | 13 | 81.2500 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0283 | 99.8745 | 98.1963 | 46.0818 | 10344 | 13 | 10344 | 190 | 184 | 96.8421 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.6860 | 91.4179 | 98.1964 | 63.3358 | 490 | 46 | 490 | 9 | 9 | 100.0000 | |
| raldana-dualsentieon | SNP | * | map_l250_m2_e1 | * | 98.1843 | 98.1720 | 98.1966 | 88.3789 | 7841 | 146 | 7841 | 144 | 6 | 4.1667 | |
| hfeng-pmm2 | INDEL | * | map_l100_m2_e1 | * | 98.3131 | 98.4292 | 98.1972 | 85.3384 | 3697 | 59 | 3704 | 68 | 13 | 19.1176 | |
| hfeng-pmm1 | INDEL | D6_15 | HG002compoundhet | * | 95.4940 | 92.9354 | 98.1974 | 32.8011 | 8393 | 638 | 8389 | 154 | 150 | 97.4026 | |
| ckim-gatk | SNP | ti | map_l125_m2_e1 | * | 85.1950 | 75.2331 | 98.1978 | 84.5085 | 22998 | 7571 | 22994 | 422 | 45 | 10.6635 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.6466 | 99.0991 | 98.1982 | 76.5823 | 440 | 4 | 436 | 8 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | * | * | 97.4049 | 96.6244 | 98.1982 | 67.4168 | 6555 | 229 | 6540 | 120 | 70 | 58.3333 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.0618 | 95.9514 | 98.1982 | 81.3445 | 237 | 10 | 218 | 4 | 2 | 50.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e0 | homalt | 69.8718 | 54.2289 | 98.1982 | 86.5942 | 109 | 92 | 109 | 2 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m2_e1 | * | 98.1350 | 98.0720 | 98.1982 | 88.9000 | 763 | 15 | 763 | 14 | 4 | 28.5714 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m2_e1 | homalt | 98.6596 | 99.1254 | 98.1982 | 85.1326 | 340 | 3 | 545 | 10 | 9 | 90.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m1_e0 | homalt | 99.0909 | 100.0000 | 98.1982 | 94.0290 | 109 | 0 | 109 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m0_e0 | homalt | 96.8889 | 95.6140 | 98.1982 | 81.0903 | 109 | 5 | 109 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | I6_15 | map_l100_m2_e0 | * | 96.0352 | 93.9655 | 98.1982 | 88.6735 | 109 | 7 | 109 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | I6_15 | map_l100_m2_e1 | * | 96.0352 | 93.9655 | 98.1982 | 88.9442 | 109 | 7 | 109 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D6_15 | * | * | 97.6552 | 97.1179 | 98.1984 | 55.4499 | 25340 | 752 | 25346 | 465 | 420 | 90.3226 | |
| raldana-dualsentieon | SNP | * | map_l250_m2_e0 | * | 98.1797 | 98.1611 | 98.1984 | 88.2926 | 7740 | 145 | 7740 | 142 | 6 | 4.2254 | |
| hfeng-pmm2 | SNP | tv | map_l250_m2_e0 | * | 98.3016 | 98.4039 | 98.1994 | 89.7037 | 2836 | 46 | 2836 | 52 | 7 | 13.4615 | |
| jli-custom | INDEL | * | HG002complexvar | hetalt | 92.1678 | 86.8343 | 98.1995 | 67.3509 | 3212 | 487 | 3436 | 63 | 62 | 98.4127 | |
| eyeh-varpipe | INDEL | I1_5 | map_l150_m1_e0 | * | 97.8142 | 97.4308 | 98.2005 | 87.3865 | 493 | 13 | 764 | 14 | 8 | 57.1429 | |