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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56401-56450 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | SNP | ti | map_l250_m2_e1 | * | 98.2211 | 98.4437 | 97.9996 | 88.4416 | 4997 | 79 | 4997 | 102 | 3 | 2.9412 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l100_m1_e0 | * | 96.4567 | 94.9612 | 98.0000 | 83.4107 | 245 | 13 | 245 | 5 | 2 | 40.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7406 | 99.4924 | 98.0000 | 58.7629 | 196 | 1 | 196 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.9796 | 97.9592 | 98.0000 | 82.2064 | 48 | 1 | 49 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | map_l125_m1_e0 | * | 95.1456 | 92.4528 | 98.0000 | 89.3617 | 49 | 4 | 49 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | map_l125_m2_e0 | * | 95.1456 | 92.4528 | 98.0000 | 90.6542 | 49 | 4 | 49 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | map_l125_m2_e1 | * | 95.1456 | 92.4528 | 98.0000 | 90.9091 | 49 | 4 | 49 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l125_m0_e0 | homalt | 98.6577 | 99.3243 | 98.0000 | 87.4896 | 147 | 1 | 147 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | segdup | hetalt | 98.9899 | 100.0000 | 98.0000 | 96.1774 | 48 | 0 | 49 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l150_m0_e0 | het | 95.1456 | 92.4528 | 98.0000 | 84.0510 | 98 | 8 | 98 | 2 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.9796 | 97.9592 | 98.0000 | 77.3756 | 48 | 1 | 49 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.3452 | 98.6928 | 98.0000 | 69.6970 | 151 | 2 | 147 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.9796 | 97.9592 | 98.0000 | 77.7778 | 48 | 1 | 49 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | I6_15 | map_siren | * | 97.1901 | 96.3934 | 98.0000 | 85.1852 | 294 | 11 | 294 | 6 | 4 | 66.6667 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.4925 | 98.9899 | 98.0000 | 87.7301 | 196 | 2 | 196 | 4 | 1 | 25.0000 | |
| egarrison-hhga | INDEL | I1_5 | segdup | hetalt | 98.9899 | 100.0000 | 98.0000 | 96.0412 | 48 | 0 | 49 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m1_e0 | homalt | 91.5888 | 85.9649 | 98.0000 | 95.0348 | 49 | 8 | 49 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | map_l100_m0_e0 | * | 96.5517 | 95.1456 | 98.0000 | 87.8935 | 98 | 5 | 98 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | map_l100_m1_e0 | * | 96.4567 | 94.9612 | 98.0000 | 85.8277 | 245 | 13 | 245 | 5 | 1 | 20.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l150_m1_e0 | het | 97.8291 | 97.6589 | 98.0000 | 90.4943 | 292 | 7 | 294 | 6 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.4925 | 98.9899 | 98.0000 | 87.0718 | 196 | 2 | 196 | 4 | 2 | 50.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 95.6098 | 93.3333 | 98.0000 | 75.7282 | 14 | 1 | 49 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7491 | 97.4988 | 98.0006 | 56.6076 | 36954 | 948 | 36761 | 750 | 723 | 96.4000 | |
| ndellapenna-hhga | INDEL | * | map_l125_m1_e0 | * | 97.7659 | 97.5320 | 98.0010 | 98.2503 | 2055 | 52 | 2059 | 42 | 15 | 35.7143 | |
| gduggal-bwaplat | INDEL | D1_5 | HG002complexvar | homalt | 93.6134 | 89.6018 | 98.0010 | 59.6110 | 9496 | 1102 | 9462 | 193 | 170 | 88.0829 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.5539 | 97.1103 | 98.0015 | 52.6392 | 1277 | 38 | 1275 | 26 | 18 | 69.2308 | |
| ndellapenna-hhga | INDEL | * | segdup | * | 97.8664 | 97.7308 | 98.0024 | 98.7178 | 2498 | 58 | 2502 | 51 | 37 | 72.5490 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8111 | 95.6479 | 98.0030 | 65.9757 | 3890 | 177 | 3877 | 79 | 63 | 79.7468 | |
| jpowers-varprowl | SNP | * | map_l125_m1_e0 | * | 97.5600 | 97.1209 | 98.0031 | 75.2469 | 44022 | 1305 | 44022 | 897 | 282 | 31.4381 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e0 | het | 61.4279 | 44.7328 | 98.0050 | 66.8730 | 4671 | 5771 | 4667 | 95 | 1 | 1.0526 | |
| ckim-dragen | SNP | tv | map_l100_m2_e0 | * | 98.6448 | 99.2929 | 98.0051 | 71.3118 | 24856 | 177 | 24859 | 506 | 45 | 8.8933 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m1_e0 | * | 98.5857 | 99.1728 | 98.0054 | 86.8862 | 1079 | 9 | 1081 | 22 | 5 | 22.7273 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1912 | 90.6623 | 98.0059 | 66.8030 | 1670 | 172 | 1671 | 34 | 28 | 82.3529 | |
| ckim-vqsr | SNP | tv | map_l100_m0_e0 | het | 79.8556 | 67.3775 | 98.0060 | 89.3473 | 4866 | 2356 | 4866 | 99 | 1 | 1.0101 | |
| jpowers-varprowl | SNP | * | map_l125_m2_e1 | * | 97.5993 | 97.1950 | 98.0069 | 76.8922 | 45878 | 1324 | 45878 | 933 | 285 | 30.5466 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8353 | 99.6779 | 98.0069 | 41.1938 | 7428 | 24 | 7425 | 151 | 1 | 0.6623 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.6075 | 95.2464 | 98.0080 | 54.6884 | 16831 | 840 | 16827 | 342 | 333 | 97.3684 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.6075 | 95.2464 | 98.0080 | 54.6884 | 16831 | 840 | 16827 | 342 | 333 | 97.3684 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.6331 | 99.2657 | 98.0084 | 78.2327 | 14464 | 107 | 14616 | 297 | 18 | 6.0606 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.6331 | 99.2657 | 98.0084 | 78.2327 | 14464 | 107 | 14616 | 297 | 18 | 6.0606 | |
| bgallagher-sentieon | INDEL | * | map_l100_m1_e0 | * | 98.3343 | 98.6615 | 98.0094 | 85.1549 | 3538 | 48 | 3545 | 72 | 17 | 23.6111 | |
| ghariani-varprowl | INDEL | I1_5 | map_l150_m2_e1 | homalt | 97.2840 | 96.5686 | 98.0100 | 85.1661 | 197 | 7 | 197 | 4 | 2 | 50.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.4441 | 94.9275 | 98.0100 | 72.9839 | 393 | 21 | 394 | 8 | 8 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m2_e0 | homalt | 98.2581 | 98.5075 | 98.0100 | 87.6079 | 198 | 3 | 197 | 4 | 3 | 75.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.7494 | 99.5000 | 98.0100 | 56.6810 | 199 | 1 | 197 | 4 | 4 | 100.0000 | |
| gduggal-snapplat | SNP | * | map_siren | * | 96.8913 | 95.7977 | 98.0103 | 67.7918 | 140083 | 6145 | 140139 | 2845 | 1340 | 47.1002 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | * | 97.4806 | 96.9555 | 98.0114 | 92.0139 | 2070 | 65 | 2070 | 42 | 27 | 64.2857 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e0 | het | 98.2282 | 98.4453 | 98.0121 | 79.6044 | 19820 | 313 | 19820 | 402 | 96 | 23.8806 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.5238 | 93.1587 | 98.0122 | 81.7675 | 640 | 47 | 641 | 13 | 7 | 53.8462 | |
| raldana-dualsentieon | SNP | tv | map_l250_m1_e0 | het | 97.2943 | 96.5865 | 98.0125 | 88.5090 | 1726 | 61 | 1726 | 35 | 1 | 2.8571 | |