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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
58051-58100 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 72.3288 | 59.4595 | 92.3077 | 71.1111 | 22 | 15 | 24 | 2 | 1 | 50.0000 | |
| ckim-isaac | INDEL | I16_PLUS | map_l125_m1_e0 | * | 0.0000 | 100.0000 | 0 | 15 | 0 | 0 | 0 | ||||
| ckim-isaac | INDEL | I16_PLUS | map_l125_m2_e0 | * | 0.0000 | 100.0000 | 0 | 15 | 0 | 0 | 0 | ||||
| ckim-isaac | INDEL | I16_PLUS | map_l125_m2_e1 | * | 0.0000 | 100.0000 | 0 | 15 | 0 | 0 | 0 | ||||
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 84.2767 | 81.7073 | 87.0130 | 73.5395 | 67 | 15 | 67 | 10 | 10 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.3607 | 98.5915 | 98.1308 | 64.2380 | 1050 | 15 | 1050 | 20 | 14 | 70.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 95.9866 | 93.8017 | 98.2759 | 65.1652 | 227 | 15 | 228 | 4 | 2 | 50.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 89.7025 | 92.8910 | 86.7257 | 67.8063 | 196 | 15 | 196 | 30 | 26 | 86.6667 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5782 | 99.3986 | 99.7586 | 57.7309 | 2479 | 15 | 2479 | 6 | 2 | 33.3333 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5483 | 99.3850 | 99.7121 | 48.3425 | 2424 | 15 | 2424 | 7 | 3 | 42.8571 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5956 | 99.3947 | 99.7973 | 28.9459 | 2463 | 15 | 2462 | 5 | 1 | 20.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6549 | 99.4561 | 99.8544 | 38.0748 | 2743 | 15 | 2743 | 4 | 4 | 100.0000 | |
| eyeh-varpipe | INDEL | * | func_cds | het | 93.8679 | 92.9907 | 94.7619 | 36.5559 | 199 | 15 | 199 | 11 | 9 | 81.8182 | |
| ckim-vqsr | SNP | tv | func_cds | * | 99.7367 | 99.6568 | 99.8166 | 38.6616 | 4356 | 15 | 4355 | 8 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_l125_m0_e0 | het | 97.2014 | 97.4446 | 96.9595 | 91.3349 | 572 | 15 | 574 | 18 | 2 | 11.1111 | |
| dgrover-gatk | INDEL | * | map_siren | homalt | 99.3423 | 99.4350 | 99.2498 | 81.7385 | 2640 | 15 | 2646 | 20 | 11 | 55.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2346 | 98.8722 | 93.7341 | 83.8197 | 1315 | 15 | 1107 | 74 | 63 | 85.1351 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.6877 | 99.7767 | 99.5988 | 53.6597 | 6701 | 15 | 6703 | 27 | 8 | 29.6296 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 98.5322 | 98.6213 | 98.4432 | 87.6162 | 1073 | 15 | 1075 | 17 | 4 | 23.5294 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e0 | * | 98.6027 | 98.6877 | 98.5179 | 88.1508 | 1128 | 15 | 1130 | 17 | 4 | 23.5294 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 98.6196 | 98.7035 | 98.5357 | 88.1988 | 1142 | 15 | 1144 | 17 | 4 | 23.5294 | |
| dgrover-gatk | INDEL | D6_15 | HG002compoundhet | het | 90.2073 | 98.2477 | 83.3834 | 68.6441 | 841 | 15 | 833 | 166 | 164 | 98.7952 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 70.8861 | 57.1429 | 93.3333 | 87.7049 | 20 | 15 | 14 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | map_l125_m1_e0 | hetalt | 66.6667 | 50.0000 | 100.0000 | 78.5714 | 15 | 15 | 15 | 0 | 0 | ||
| ckim-isaac | SNP | * | map_l125_m2_e0 | hetalt | 66.6667 | 50.0000 | 100.0000 | 81.0127 | 15 | 15 | 15 | 0 | 0 | ||
| ckim-isaac | SNP | * | map_l125_m2_e1 | hetalt | 66.6667 | 50.0000 | 100.0000 | 81.0127 | 15 | 15 | 15 | 0 | 0 | ||
| ckim-isaac | SNP | tv | map_l125_m1_e0 | hetalt | 66.6667 | 50.0000 | 100.0000 | 78.5714 | 15 | 15 | 15 | 0 | 0 | ||
| ckim-isaac | SNP | tv | map_l125_m2_e0 | hetalt | 66.6667 | 50.0000 | 100.0000 | 81.0127 | 15 | 15 | 15 | 0 | 0 | ||
| ckim-isaac | SNP | tv | map_l125_m2_e1 | hetalt | 66.6667 | 50.0000 | 100.0000 | 81.0127 | 15 | 15 | 15 | 0 | 0 | ||
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5993 | 99.5000 | 99.6988 | 76.7994 | 2985 | 15 | 2979 | 9 | 4 | 44.4444 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0234 | 99.8552 | 98.2053 | 45.9033 | 10342 | 15 | 10342 | 189 | 184 | 97.3545 | |
| ckim-vqsr | INDEL | * | map_l100_m1_e0 | hetalt | 93.5622 | 87.9032 | 100.0000 | 86.7947 | 109 | 15 | 110 | 0 | 0 | ||
| ckim-vqsr | INDEL | D1_5 | HG002complexvar | homalt | 99.8538 | 99.8585 | 99.8491 | 60.1802 | 10583 | 15 | 10590 | 16 | 14 | 87.5000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2975 | 98.8995 | 99.6988 | 78.3007 | 1348 | 15 | 1324 | 4 | 3 | 75.0000 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7680 | 99.5658 | 99.9709 | 62.5612 | 3440 | 15 | 3440 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | HG002complexvar | hetalt | 96.2406 | 92.7536 | 100.0000 | 40.3727 | 192 | 15 | 192 | 0 | 0 | ||
| egarrison-hhga | INDEL | D16_PLUS | HG002complexvar | homalt | 89.8612 | 94.8097 | 85.4037 | 66.1053 | 274 | 15 | 275 | 47 | 38 | 80.8511 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 74.6988 | 67.3913 | 83.7838 | 60.6383 | 31 | 15 | 31 | 6 | 6 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | map_l100_m2_e1 | hetalt | 65.2174 | 50.0000 | 93.7500 | 72.8814 | 15 | 15 | 15 | 1 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.6925 | 98.3731 | 97.0213 | 73.9323 | 907 | 15 | 912 | 28 | 15 | 53.5714 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m1_e0 | * | 97.9763 | 97.9079 | 98.0447 | 88.3293 | 702 | 15 | 702 | 14 | 4 | 28.5714 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m2_e0 | * | 98.0984 | 98.0341 | 98.1627 | 88.9051 | 748 | 15 | 748 | 14 | 4 | 28.5714 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m2_e1 | * | 98.1350 | 98.0720 | 98.1982 | 88.9000 | 763 | 15 | 763 | 14 | 4 | 28.5714 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 89.8828 | 86.1111 | 94.0000 | 83.4437 | 93 | 15 | 94 | 6 | 2 | 33.3333 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 86.3992 | 85.8491 | 86.9565 | 83.3031 | 91 | 15 | 80 | 12 | 5 | 41.6667 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4400 | 98.0595 | 98.8235 | 76.0788 | 758 | 15 | 756 | 9 | 1 | 11.1111 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 94.3685 | 96.3964 | 92.4242 | 70.2894 | 428 | 16 | 427 | 35 | 32 | 91.4286 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.3594 | 93.8224 | 87.1429 | 56.0440 | 243 | 16 | 244 | 36 | 30 | 83.3333 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.6516 | 91.0112 | 96.4497 | 70.6087 | 162 | 16 | 163 | 6 | 5 | 83.3333 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 91.5332 | 92.5926 | 90.4977 | 62.7319 | 200 | 16 | 200 | 21 | 15 | 71.4286 | |