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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22951-23000 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | * | map_l100_m2_e0 | homalt | 98.2022 | 97.4623 | 98.9533 | 82.2165 | 1229 | 32 | 1229 | 13 | 9 | 69.2308 | |
| cchapple-custom | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 64.8649 | 93.6097 | 0 | 0 | 24 | 13 | 3 | 23.0769 | |
| cchapple-custom | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 82.6667 | 96.5181 | 0 | 0 | 62 | 13 | 4 | 30.7692 | |
| cchapple-custom | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 77.1930 | 96.7558 | 0 | 0 | 44 | 13 | 4 | 30.7692 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.4351 | 93.0348 | 93.8389 | 85.0989 | 187 | 14 | 198 | 13 | 11 | 84.6154 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 93.5361 | 96.8504 | 90.4412 | 37.6147 | 123 | 4 | 123 | 13 | 12 | 92.3077 | |
| cchapple-custom | INDEL | D16_PLUS | map_l100_m2_e0 | het | 83.6445 | 85.4167 | 81.9444 | 92.5620 | 41 | 7 | 59 | 13 | 7 | 53.8462 | |
| cchapple-custom | INDEL | D16_PLUS | map_l100_m2_e1 | het | 84.6663 | 86.2745 | 83.1169 | 92.2457 | 44 | 7 | 64 | 13 | 7 | 53.8462 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8767 | 99.8821 | 99.8712 | 51.6311 | 10166 | 12 | 10084 | 13 | 11 | 84.6154 | |
| cchapple-custom | INDEL | D1_5 | map_l250_m1_e0 | * | 94.8142 | 97.0760 | 92.6554 | 94.4234 | 166 | 5 | 164 | 13 | 1 | 7.6923 | |
| cchapple-custom | INDEL | D1_5 | map_l250_m1_e0 | het | 93.1984 | 97.2973 | 89.4309 | 94.7682 | 108 | 3 | 110 | 13 | 1 | 7.6923 | |
| cchapple-custom | INDEL | I16_PLUS | HG002complexvar | het | 97.6379 | 96.5414 | 98.7595 | 67.9804 | 642 | 23 | 1035 | 13 | 7 | 53.8462 | |
| ckim-gatk | INDEL | D6_15 | map_siren | het | 96.8229 | 98.2143 | 95.4704 | 89.1534 | 275 | 5 | 274 | 13 | 2 | 15.3846 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.7735 | 92.5000 | 97.1616 | 81.7457 | 444 | 36 | 445 | 13 | 12 | 92.3077 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.2012 | 96.5257 | 97.8862 | 78.6532 | 639 | 23 | 602 | 13 | 7 | 53.8462 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.5230 | 99.2995 | 97.7586 | 67.1946 | 567 | 4 | 567 | 13 | 13 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.9248 | 100.0000 | 92.1687 | 77.1034 | 153 | 0 | 153 | 13 | 12 | 92.3077 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8159 | 99.9133 | 99.7187 | 39.4602 | 4612 | 4 | 4608 | 13 | 3 | 23.0769 | |
| ckim-isaac | INDEL | * | map_l150_m1_e0 | * | 74.6172 | 60.0897 | 98.4088 | 90.7075 | 804 | 534 | 804 | 13 | 5 | 38.4615 | |
| ckim-isaac | INDEL | * | map_l150_m2_e0 | * | 74.8018 | 60.2983 | 98.4919 | 91.3653 | 849 | 559 | 849 | 13 | 5 | 38.4615 | |
| ckim-isaac | INDEL | * | map_l150_m2_e1 | * | 74.8271 | 60.3197 | 98.5227 | 91.3700 | 868 | 571 | 867 | 13 | 5 | 38.4615 | |
| ciseli-custom | INDEL | C1_5 | map_l125_m1_e0 | homalt | 0.0000 | 0.0000 | 7.1429 | 96.2060 | 0 | 0 | 1 | 13 | 2 | 15.3846 | |
| ciseli-custom | INDEL | C1_5 | segdup | homalt | 0.0000 | 0.0000 | 18.7500 | 98.4541 | 0 | 0 | 3 | 13 | 4 | 30.7692 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 23.5294 | 100.0000 | 13.3333 | 89.6552 | 1 | 0 | 2 | 13 | 7 | 53.8462 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m0_e0 | homalt | 48.0468 | 33.6538 | 83.9506 | 85.2727 | 70 | 138 | 68 | 13 | 10 | 76.9231 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.7694 | 88.7681 | 94.9807 | 88.6104 | 245 | 31 | 246 | 13 | 6 | 46.1538 | |
| egarrison-hhga | SNP | * | map_l125_m1_e0 | homalt | 99.8075 | 99.6924 | 99.9229 | 66.3441 | 16853 | 52 | 16853 | 13 | 13 | 100.0000 | |
| egarrison-hhga | SNP | * | map_l125_m2_e0 | homalt | 99.8127 | 99.7007 | 99.9250 | 68.9614 | 17323 | 52 | 17323 | 13 | 13 | 100.0000 | |
| egarrison-hhga | SNP | * | map_l125_m2_e1 | homalt | 99.8144 | 99.7034 | 99.9257 | 69.0000 | 17480 | 52 | 17480 | 13 | 13 | 100.0000 | |
| egarrison-hhga | SNP | * | map_l250_m0_e0 | het | 97.6415 | 96.2151 | 99.1108 | 92.9345 | 1449 | 57 | 1449 | 13 | 3 | 23.0769 | |
| egarrison-hhga | SNP | ti | map_l100_m2_e0 | homalt | 99.8579 | 99.7870 | 99.9289 | 62.7872 | 18270 | 39 | 18270 | 13 | 13 | 100.0000 | |
| egarrison-hhga | SNP | ti | map_l100_m2_e1 | homalt | 99.8593 | 99.7891 | 99.9296 | 62.7744 | 18455 | 39 | 18455 | 13 | 13 | 100.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.1405 | 99.2515 | 99.0299 | 57.3248 | 1326 | 10 | 1327 | 13 | 3 | 23.0769 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e0 | het | 98.0955 | 96.9072 | 99.3133 | 87.4569 | 1880 | 60 | 1880 | 13 | 5 | 38.4615 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e1 | het | 98.1200 | 96.9466 | 99.3222 | 87.5276 | 1905 | 60 | 1905 | 13 | 5 | 38.4615 | |
| egarrison-hhga | SNP | tv | segdup | homalt | 99.7379 | 99.8765 | 99.5996 | 90.3915 | 3234 | 4 | 3234 | 13 | 13 | 100.0000 | |
| eyeh-varpipe | INDEL | * | func_cds | * | 95.4669 | 93.9326 | 97.0522 | 79.5644 | 418 | 27 | 428 | 13 | 11 | 84.6154 | |
| eyeh-varpipe | INDEL | C16_PLUS | HG002complexvar | * | 0.0000 | 0.0000 | 79.3651 | 87.3239 | 0 | 0 | 50 | 13 | 12 | 92.3077 | |
| eyeh-varpipe | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 60.6061 | 95.0000 | 0 | 0 | 20 | 13 | 10 | 76.9231 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 90.2256 | 0 | 0 | 0 | 13 | 4 | 30.7692 | ||
| egarrison-hhga | INDEL | D16_PLUS | map_l100_m2_e0 | het | 84.0407 | 91.6667 | 77.5862 | 88.2114 | 44 | 4 | 45 | 13 | 10 | 76.9231 | |
| egarrison-hhga | INDEL | D16_PLUS | map_l100_m2_e1 | het | 84.8918 | 92.1569 | 78.6885 | 88.0626 | 47 | 4 | 48 | 13 | 10 | 76.9231 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.2767 | 96.0630 | 90.6475 | 74.0187 | 122 | 5 | 126 | 13 | 7 | 53.8462 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.2552 | 98.0301 | 98.4813 | 60.8417 | 846 | 17 | 843 | 13 | 10 | 76.9231 | |
| dgrover-gatk | INDEL | * | map_l100_m1_e0 | homalt | 99.0228 | 99.1035 | 98.9422 | 84.0369 | 1216 | 11 | 1216 | 13 | 6 | 46.1538 | |
| dgrover-gatk | INDEL | * | map_l150_m0_e0 | het | 96.6534 | 97.0674 | 96.2428 | 93.6769 | 331 | 10 | 333 | 13 | 1 | 7.6923 | |
| dgrover-gatk | INDEL | * | map_l250_m1_e0 | * | 95.7377 | 95.7377 | 95.7377 | 96.2967 | 292 | 13 | 292 | 13 | 3 | 23.0769 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e0 | * | 96.0725 | 96.0725 | 96.0725 | 96.4988 | 318 | 13 | 318 | 13 | 3 | 23.0769 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e1 | * | 96.0961 | 96.0961 | 96.0961 | 96.5720 | 320 | 13 | 320 | 13 | 3 | 23.0769 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6834 | 94.2486 | 99.2472 | 33.8314 | 1524 | 93 | 1714 | 13 | 13 | 100.0000 | |