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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
64151-64200 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 93.9218 | 93.7603 | 94.0840 | 81.1239 | 571 | 38 | 493 | 31 | 26 | 83.8710 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m2_e0 | * | 98.5570 | 98.0157 | 99.1043 | 82.2749 | 1877 | 38 | 1881 | 17 | 5 | 29.4118 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m2_e1 | * | 98.5749 | 98.0402 | 99.1155 | 82.3896 | 1901 | 38 | 1905 | 17 | 5 | 29.4118 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.6120 | 90.0000 | 99.7222 | 61.7428 | 342 | 38 | 359 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.3619 | 99.0333 | 99.6927 | 53.9179 | 3893 | 38 | 3893 | 12 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.6171 | 94.9468 | 98.3471 | 64.1481 | 714 | 38 | 714 | 12 | 9 | 75.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.9427 | 98.5704 | 99.3179 | 69.3175 | 2620 | 38 | 2621 | 18 | 14 | 77.7778 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 90.9511 | 85.8736 | 96.6667 | 77.4436 | 231 | 38 | 232 | 8 | 5 | 62.5000 | |
| rpoplin-dv42 | SNP | tv | map_l150_m0_e0 | homalt | 98.3607 | 97.1386 | 99.6139 | 76.6034 | 1290 | 38 | 1290 | 5 | 5 | 100.0000 | |
| raldana-dualsentieon | SNP | ti | map_l150_m1_e0 | homalt | 99.6923 | 99.4814 | 99.9041 | 67.2252 | 7289 | 38 | 7289 | 7 | 6 | 85.7143 | |
| raldana-dualsentieon | SNP | ti | segdup | * | 99.6041 | 99.8055 | 99.4035 | 89.2386 | 19499 | 38 | 19497 | 117 | 4 | 3.4188 | |
| rpoplin-dv42 | INDEL | * | map_l100_m0_e0 | het | 97.0417 | 96.2782 | 97.8175 | 85.4440 | 983 | 38 | 986 | 22 | 6 | 27.2727 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e1 | * | 97.8375 | 97.3593 | 98.3205 | 99.0326 | 1401 | 38 | 1405 | 24 | 12 | 50.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | HG002complexvar | homalt | 99.7026 | 99.6414 | 99.7639 | 58.4249 | 10560 | 38 | 10565 | 25 | 23 | 92.0000 | |
| ckim-isaac | INDEL | D16_PLUS | map_l100_m1_e0 | het | 26.6667 | 17.3913 | 57.1429 | 93.5484 | 8 | 38 | 8 | 6 | 3 | 50.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l250_m2_e0 | homalt | 53.6585 | 36.6667 | 100.0000 | 94.3005 | 22 | 38 | 22 | 0 | 0 | ||
| ckim-isaac | INDEL | D1_5 | map_l250_m2_e1 | homalt | 53.6585 | 36.6667 | 100.0000 | 94.4584 | 22 | 38 | 22 | 0 | 0 | ||
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e1 | homalt | 60.4167 | 43.2836 | 100.0000 | 74.5614 | 29 | 38 | 29 | 0 | 0 | ||
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.5539 | 97.1103 | 98.0015 | 52.6392 | 1277 | 38 | 1275 | 26 | 18 | 69.2308 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1784 | 99.0254 | 99.3318 | 68.0069 | 3861 | 38 | 3865 | 26 | 15 | 57.6923 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3929 | 99.1153 | 99.6722 | 49.8944 | 4257 | 38 | 4257 | 14 | 3 | 21.4286 | |
| ckim-vqsr | SNP | ti | func_cds | * | 99.7642 | 99.7244 | 99.8040 | 29.1716 | 13749 | 38 | 13747 | 27 | 0 | 0.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6287 | 99.4366 | 99.8215 | 36.6123 | 6707 | 38 | 6709 | 12 | 10 | 83.3333 | |
| egarrison-hhga | SNP | ti | HG002compoundhet | homalt | 99.3116 | 99.4861 | 99.1378 | 31.0451 | 7356 | 38 | 7359 | 64 | 54 | 84.3750 | |
| ckim-isaac | SNP | * | HG002complexvar | hetalt | 93.4708 | 87.7419 | 100.0000 | 29.5337 | 272 | 38 | 272 | 0 | 0 | ||
| ckim-isaac | SNP | tv | HG002complexvar | hetalt | 93.4708 | 87.7419 | 100.0000 | 29.5337 | 272 | 38 | 272 | 0 | 0 | ||
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.5381 | 97.5357 | 97.5405 | 74.8248 | 1504 | 38 | 1507 | 38 | 24 | 63.1579 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m1_e0 | * | 98.0764 | 97.9437 | 98.2094 | 82.9273 | 1810 | 38 | 1810 | 33 | 12 | 36.3636 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m2_e0 | * | 98.1438 | 98.0157 | 98.2723 | 83.6389 | 1877 | 38 | 1877 | 33 | 12 | 36.3636 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e0 | het | 98.1424 | 98.3528 | 97.9328 | 87.3523 | 2269 | 38 | 2274 | 48 | 10 | 20.8333 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e1 | het | 98.1708 | 98.3781 | 97.9644 | 87.4166 | 2305 | 38 | 2310 | 48 | 10 | 20.8333 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | * | 98.3157 | 98.2921 | 98.3393 | 89.1708 | 2187 | 38 | 2191 | 37 | 8 | 21.6216 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1103 | 98.0341 | 98.1865 | 65.1058 | 1895 | 38 | 1895 | 35 | 35 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1124 | 95.2081 | 99.0944 | 24.4379 | 755 | 38 | 766 | 7 | 6 | 85.7143 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8850 | 94.2337 | 99.6899 | 70.3721 | 621 | 38 | 643 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8850 | 94.2337 | 99.6899 | 70.3721 | 621 | 38 | 643 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5626 | 98.0720 | 99.0581 | 75.3578 | 1933 | 38 | 1893 | 18 | 10 | 55.5556 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5626 | 98.0720 | 99.0581 | 75.3578 | 1933 | 38 | 1893 | 18 | 10 | 55.5556 | |
| bgallagher-sentieon | SNP | * | HG002compoundhet | het | 99.7460 | 99.7320 | 99.7601 | 45.7386 | 14140 | 38 | 14138 | 34 | 11 | 32.3529 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e0 | homalt | 99.6909 | 99.5011 | 99.8814 | 70.4694 | 7578 | 38 | 7578 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e1 | homalt | 99.6940 | 99.5060 | 99.8826 | 70.5038 | 7655 | 38 | 7655 | 9 | 7 | 77.7778 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3031 | 98.7158 | 99.8974 | 47.9345 | 2921 | 38 | 2921 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | * | map_l150_m0_e0 | het | 88.4846 | 88.8563 | 88.1159 | 94.8291 | 303 | 38 | 304 | 41 | 2 | 4.8781 | |
| asubramanian-gatk | INDEL | D16_PLUS | HG002complexvar | het | 97.1610 | 96.5673 | 97.7621 | 69.4274 | 1069 | 38 | 830 | 19 | 9 | 47.3684 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.7159 | 97.8795 | 97.5528 | 69.2597 | 1754 | 38 | 1754 | 44 | 33 | 75.0000 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 27.3141 | 19.1489 | 47.6190 | 61.1111 | 9 | 38 | 10 | 11 | 10 | 90.9091 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 25.4902 | 0.0000 | 0.0000 | 13 | 38 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 97.0895 | 96.5074 | 97.6787 | 87.4226 | 1050 | 38 | 1052 | 25 | 5 | 20.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.8373 | 92.3541 | 97.4576 | 76.1616 | 459 | 38 | 460 | 12 | 12 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6137 | 98.0720 | 99.1614 | 75.6166 | 1933 | 38 | 1892 | 16 | 8 | 50.0000 | |