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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
65301-65350 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | I6_15 | map_l100_m0_e0 | het | 81.4747 | 76.4706 | 87.1795 | 78.5714 | 13 | 4 | 34 | 5 | 3 | 60.0000 | |
| gduggal-bwafb | SNP | ti | map_l100_m0_e0 | homalt | 99.4445 | 99.0224 | 99.8703 | 64.5919 | 7698 | 76 | 7698 | 10 | 6 | 60.0000 | |
| gduggal-bwafb | SNP | ti | map_l100_m1_e0 | homalt | 99.5923 | 99.2984 | 99.8880 | 61.5927 | 17834 | 126 | 17834 | 20 | 12 | 60.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 84.3756 | 73.2446 | 99.4960 | 78.1450 | 991 | 362 | 987 | 5 | 3 | 60.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 77.7331 | 64.7163 | 97.3046 | 78.9683 | 365 | 199 | 361 | 10 | 6 | 60.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 49.0051 | 33.5664 | 90.7407 | 98.6432 | 48 | 95 | 49 | 5 | 3 | 60.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 40.6561 | 26.7327 | 84.8485 | 99.0214 | 27 | 74 | 28 | 5 | 3 | 60.0000 | |
| gduggal-bwavard | INDEL | * | map_l125_m0_e0 | homalt | 95.4792 | 92.9577 | 98.1413 | 83.6474 | 264 | 20 | 264 | 5 | 3 | 60.0000 | |
| gduggal-bwavard | INDEL | C16_PLUS | HG002complexvar | homalt | 0.0000 | 0.0000 | 76.1905 | 86.4516 | 0 | 0 | 16 | 5 | 3 | 60.0000 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 49.6593 | 34.5745 | 88.0952 | 72.2117 | 260 | 492 | 259 | 35 | 21 | 60.0000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 69.5652 | 66.6667 | 72.7273 | 99.4295 | 38 | 19 | 40 | 15 | 9 | 60.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m2_e0 | homalt | 97.3294 | 96.1877 | 98.4985 | 80.2725 | 328 | 13 | 328 | 5 | 3 | 60.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m2_e1 | homalt | 97.3451 | 96.2099 | 98.5075 | 80.6134 | 330 | 13 | 330 | 5 | 3 | 60.0000 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 0.0000 | 0.0000 | 75.0000 | 94.0299 | 0 | 0 | 15 | 5 | 3 | 60.0000 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 0.0000 | 0.0000 | 75.0000 | 94.0299 | 0 | 0 | 15 | 5 | 3 | 60.0000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 4.6119 | 2.5026 | 29.3478 | 74.2297 | 24 | 935 | 27 | 65 | 39 | 60.0000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 5.8388 | 3.2419 | 29.3478 | 73.4870 | 13 | 388 | 27 | 65 | 39 | 60.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l150_m1_e0 | * | 72.1633 | 71.2329 | 73.1183 | 89.6667 | 52 | 21 | 68 | 25 | 15 | 60.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 2.1951 | 1.1236 | 47.3684 | 61.6162 | 1 | 88 | 18 | 20 | 12 | 60.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 3.6290 | 1.8868 | 47.3684 | 61.2245 | 1 | 52 | 18 | 20 | 12 | 60.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 74.3629 | 60.5839 | 96.2547 | 84.1166 | 249 | 162 | 257 | 10 | 6 | 60.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l125_m1_e0 | het | 75.0000 | 80.0000 | 70.5882 | 92.6407 | 24 | 6 | 24 | 10 | 6 | 60.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l125_m2_e0 | het | 75.0000 | 80.0000 | 70.5882 | 93.5484 | 24 | 6 | 24 | 10 | 6 | 60.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l125_m2_e1 | het | 75.0000 | 80.0000 | 70.5882 | 93.6803 | 24 | 6 | 24 | 10 | 6 | 60.0000 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.8939 | 99.9277 | 97.8814 | 65.9861 | 1382 | 1 | 1386 | 30 | 18 | 60.0000 | |
| ghariani-varprowl | SNP | ti | map_l125_m0_e0 | homalt | 98.6718 | 97.5952 | 99.7724 | 69.9542 | 4383 | 108 | 4383 | 10 | 6 | 60.0000 | |
| hfeng-pmm1 | INDEL | * | map_l125_m0_e0 | homalt | 98.5965 | 98.9437 | 98.2517 | 86.4967 | 281 | 3 | 281 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | D1_5 | HG002complexvar | hetalt | 78.9505 | 73.7426 | 84.9498 | 82.4839 | 997 | 355 | 508 | 90 | 54 | 60.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 93.8785 | 95.3488 | 92.4528 | 68.3014 | 246 | 12 | 245 | 20 | 12 | 60.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m1_e0 | homalt | 98.2779 | 97.9943 | 98.5632 | 89.1589 | 342 | 7 | 343 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m2_e0 | homalt | 98.3490 | 98.0769 | 98.6226 | 89.6286 | 357 | 7 | 358 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m2_e1 | homalt | 98.3846 | 98.1183 | 98.6523 | 89.5962 | 365 | 7 | 366 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m1_e0 | homalt | 97.9836 | 98.4848 | 97.4874 | 91.7152 | 195 | 3 | 194 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m2_e0 | homalt | 98.0136 | 98.5075 | 97.5248 | 92.5185 | 198 | 3 | 197 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.0428 | 98.5294 | 97.5610 | 92.5617 | 201 | 3 | 200 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | SNP | * | map_l250_m1_e0 | homalt | 95.4651 | 91.8798 | 99.3415 | 92.6863 | 2263 | 200 | 2263 | 15 | 9 | 60.0000 | |
| gduggal-snapvard | INDEL | I6_15 | map_l250_m0_e0 | * | 0.0000 | 0.0000 | 37.5000 | 95.8549 | 0 | 1 | 3 | 5 | 3 | 60.0000 | |
| gduggal-snapvard | INDEL | I6_15 | map_l250_m0_e0 | het | 0.0000 | 0.0000 | 37.5000 | 95.5056 | 0 | 0 | 3 | 5 | 3 | 60.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4743 | 97.4291 | 99.5421 | 56.2675 | 1099 | 29 | 1087 | 5 | 3 | 60.0000 | |
| anovak-vg | INDEL | * | map_l100_m1_e0 | * | 72.2354 | 72.6157 | 71.8590 | 84.0163 | 2604 | 982 | 2671 | 1046 | 628 | 60.0382 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0559 | 96.7947 | 99.3503 | 55.8922 | 41946 | 1389 | 42206 | 276 | 166 | 60.1449 | |
| rpoplin-dv42 | SNP | ti | map_l100_m2_e1 | het | 99.3494 | 99.1473 | 99.5523 | 65.6527 | 30696 | 264 | 30688 | 138 | 83 | 60.1449 | |
| jlack-gatk | INDEL | D16_PLUS | * | * | 96.2606 | 96.5065 | 96.0159 | 70.3319 | 6547 | 237 | 6531 | 271 | 163 | 60.1476 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.6814 | 77.2332 | 91.3043 | 82.9887 | 977 | 288 | 1029 | 98 | 59 | 60.2041 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 77.2684 | 79.2312 | 75.4005 | 60.0913 | 1278 | 335 | 1318 | 430 | 259 | 60.2326 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 84.4285 | 76.5337 | 94.1394 | 56.8627 | 4067 | 1247 | 4080 | 254 | 153 | 60.2362 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.7221 | 89.8362 | 97.9593 | 52.4760 | 9979 | 1129 | 12193 | 254 | 153 | 60.2362 | |
| hfeng-pmm2 | INDEL | * | HG002complexvar | het | 98.8368 | 97.8772 | 99.8154 | 56.6580 | 45231 | 981 | 44870 | 83 | 50 | 60.2410 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.0280 | 94.8346 | 99.3253 | 40.5686 | 6334 | 345 | 11482 | 78 | 47 | 60.2564 | |
| anovak-vg | INDEL | * | map_l100_m2_e1 | * | 72.2208 | 72.4441 | 71.9990 | 84.9008 | 2721 | 1035 | 2795 | 1087 | 655 | 60.2576 | |