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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22451-22500 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 88.2868 | 81.1828 | 96.7532 | 67.3729 | 151 | 35 | 149 | 5 | 4 | 80.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7968 | 99.6842 | 99.9096 | 55.6842 | 11049 | 35 | 11049 | 10 | 7 | 70.0000 | |
| egarrison-hhga | INDEL | * | map_siren | homalt | 98.7934 | 98.6817 | 98.9052 | 79.7136 | 2620 | 35 | 2620 | 29 | 20 | 68.9655 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.5379 | 95.4068 | 95.6693 | 67.9563 | 727 | 35 | 729 | 33 | 24 | 72.7273 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.1017 | 90.7652 | 93.4783 | 56.5012 | 344 | 35 | 344 | 24 | 14 | 58.3333 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.4647 | 97.8852 | 89.4261 | 56.5157 | 1620 | 35 | 1683 | 199 | 186 | 93.4673 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 72.8872 | 59.3023 | 94.5455 | 73.4300 | 51 | 35 | 52 | 3 | 2 | 66.6667 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m1_e0 | het | 57.1133 | 40.6780 | 95.8333 | 92.5697 | 24 | 35 | 23 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e0 | het | 59.0641 | 42.6230 | 96.1538 | 92.8177 | 26 | 35 | 25 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e1 | het | 59.0641 | 42.6230 | 96.1538 | 92.8767 | 26 | 35 | 25 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l125_m1_e0 | * | 50.7042 | 33.9623 | 100.0000 | 94.6903 | 18 | 35 | 18 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l125_m2_e0 | * | 50.7042 | 33.9623 | 100.0000 | 95.3368 | 18 | 35 | 18 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l125_m2_e1 | * | 50.7042 | 33.9623 | 100.0000 | 95.4774 | 18 | 35 | 18 | 0 | 0 | ||
| ckim-isaac | SNP | * | map_siren | hetalt | 72.4409 | 56.7901 | 100.0000 | 72.4551 | 46 | 35 | 46 | 0 | 0 | ||
| ckim-isaac | SNP | tv | map_siren | hetalt | 72.4409 | 56.7901 | 100.0000 | 72.4551 | 46 | 35 | 46 | 0 | 0 | ||
| ckim-vqsr | INDEL | * | HG002complexvar | homalt | 99.7470 | 99.8705 | 99.6237 | 57.3434 | 26992 | 35 | 27005 | 102 | 98 | 96.0784 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.7738 | 96.3504 | 99.2400 | 58.5695 | 924 | 35 | 914 | 7 | 5 | 71.4286 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.0968 | 96.9379 | 99.2838 | 80.1281 | 1108 | 35 | 1109 | 8 | 1 | 12.5000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m2_e1 | * | 98.0356 | 96.9749 | 99.1197 | 80.1572 | 1122 | 35 | 1126 | 10 | 1 | 10.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6185 | 96.2845 | 98.9899 | 65.5452 | 907 | 35 | 882 | 9 | 2 | 22.2222 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.0504 | 99.1851 | 96.9413 | 58.5086 | 4260 | 35 | 4342 | 137 | 1 | 0.7299 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 75.9910 | 61.9565 | 98.2456 | 60.6897 | 57 | 35 | 56 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | HG002compoundhet | homalt | 98.8916 | 99.5266 | 98.2646 | 31.2248 | 7359 | 35 | 7361 | 130 | 119 | 91.5385 | |
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.4054 | 96.4718 | 98.3573 | 68.7720 | 957 | 35 | 958 | 16 | 6 | 37.5000 | |
| ndellapenna-hhga | SNP | tv | map_l100_m1_e0 | homalt | 99.7619 | 99.6130 | 99.9113 | 61.1747 | 9008 | 35 | 9008 | 8 | 6 | 75.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.3984 | 95.9444 | 96.8568 | 59.7281 | 828 | 35 | 832 | 27 | 25 | 92.5926 | |
| mlin-fermikit | SNP | * | map_siren | hetalt | 72.4409 | 56.7901 | 100.0000 | 65.9259 | 46 | 35 | 46 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | func_cds | het | 99.1679 | 98.6827 | 99.6579 | 21.9982 | 2622 | 35 | 2622 | 9 | 0 | 0.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5033 | 98.3901 | 98.6169 | 63.5523 | 2139 | 35 | 2139 | 30 | 19 | 63.3333 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.3986 | 97.4766 | 99.3382 | 61.3636 | 1352 | 35 | 1351 | 9 | 1 | 11.1111 | |
| mlin-fermikit | SNP | tv | map_siren | hetalt | 72.4409 | 56.7901 | 100.0000 | 65.9259 | 46 | 35 | 46 | 0 | 0 | ||
| qzeng-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 74.4526 | 59.3023 | 100.0000 | 68.1818 | 51 | 35 | 42 | 0 | 0 | ||
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 60.1129 | 67.5926 | 54.1237 | 69.5925 | 73 | 35 | 105 | 89 | 26 | 29.2135 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.3473 | 94.4444 | 96.2675 | 68.4185 | 595 | 35 | 619 | 24 | 11 | 45.8333 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 76.3948 | 71.7742 | 81.6514 | 99.9459 | 89 | 35 | 89 | 20 | 12 | 60.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.9502 | 96.5174 | 97.3869 | 63.5264 | 970 | 35 | 969 | 26 | 17 | 65.3846 | |
| ndellapenna-hhga | INDEL | D6_15 | map_siren | hetalt | 75.3022 | 64.6465 | 90.1639 | 76.8061 | 64 | 35 | 55 | 6 | 2 | 33.3333 | |
| 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 | |
| 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 | |
| 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 | |