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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8801-8850 / 86044 show all | |||||||||||||||
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 68.5647 | 57.5184 | 84.8624 | 93.9078 | 547 | 404 | 555 | 99 | 45 | 45.4545 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 66.6828 | 57.1125 | 80.1061 | 51.0601 | 538 | 404 | 906 | 225 | 212 | 94.2222 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 92.5410 | 98.7028 | 87.1034 | 79.6250 | 30739 | 404 | 30832 | 4565 | 319 | 6.9880 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 92.5410 | 98.7028 | 87.1034 | 79.6250 | 30739 | 404 | 30832 | 4565 | 319 | 6.9880 | |
| gduggal-snapfb | INDEL | D16_PLUS | HG002compoundhet | het | 0.4926 | 0.2469 | 100.0000 | 0.0000 | 1 | 404 | 1 | 0 | 0 | ||
| gduggal-snapplat | SNP | ti | HG002compoundhet | homalt | 95.6482 | 94.5361 | 96.7868 | 36.7388 | 6990 | 404 | 6928 | 230 | 158 | 68.6957 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 73.1222 | 57.8728 | 99.2832 | 78.7023 | 555 | 404 | 554 | 4 | 2 | 50.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 1.7032 | 0.0000 | 0.0000 | 7 | 404 | 0 | 0 | 0 | ||
| qzeng-custom | INDEL | * | map_l150_m2_e0 | * | 81.1578 | 71.3778 | 94.0432 | 94.0095 | 1005 | 403 | 1263 | 80 | 39 | 48.7500 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.5449 | 90.4908 | 96.8125 | 75.4534 | 3835 | 403 | 3918 | 129 | 10 | 7.7519 | |
| jpowers-varprowl | SNP | ti | map_l125_m0_e0 | het | 95.7486 | 95.1228 | 96.3826 | 81.5656 | 7860 | 403 | 7860 | 295 | 104 | 35.2542 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.5589 | 95.6625 | 99.5320 | 31.5275 | 8888 | 403 | 8932 | 42 | 40 | 95.2381 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.5589 | 95.6625 | 99.5320 | 31.5275 | 8888 | 403 | 8932 | 42 | 40 | 95.2381 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.7472 | 94.1475 | 99.4946 | 23.8423 | 6483 | 403 | 6496 | 33 | 33 | 100.0000 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m2_e0 | * | 59.1149 | 52.9755 | 66.8639 | 88.9180 | 454 | 403 | 452 | 224 | 193 | 86.1607 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 13.0521 | 7.5688 | 47.3684 | 59.8945 | 33 | 403 | 72 | 80 | 25 | 31.2500 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.4673 | 97.4995 | 99.4544 | 67.8523 | 15675 | 402 | 15676 | 86 | 70 | 81.3953 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.4673 | 97.4995 | 99.4544 | 67.8523 | 15675 | 402 | 15676 | 86 | 70 | 81.3953 | |
| qzeng-custom | SNP | ti | map_l250_m0_e0 | het | 67.5985 | 56.9593 | 83.1250 | 98.4261 | 532 | 402 | 532 | 108 | 85 | 78.7037 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 80.6871 | 76.7630 | 85.0340 | 31.9444 | 1328 | 402 | 1375 | 242 | 240 | 99.1736 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 59.2949 | 45.8221 | 83.9901 | 84.3906 | 340 | 402 | 341 | 65 | 1 | 1.5385 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m1_e0 | * | 77.0354 | 63.0515 | 98.9899 | 94.0592 | 686 | 402 | 686 | 7 | 1 | 14.2857 | |
| gduggal-bwafb | INDEL | I16_PLUS | HG002complexvar | het | 56.0161 | 39.5489 | 95.9799 | 46.2162 | 263 | 402 | 382 | 16 | 16 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.4040 | 89.7684 | 97.3466 | 51.5533 | 3527 | 402 | 3522 | 96 | 90 | 93.7500 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.9780 | 97.7891 | 79.9560 | 49.1916 | 17781 | 402 | 17815 | 4466 | 191 | 4.2768 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 60.9836 | 60.0000 | 62.0000 | 58.6311 | 603 | 402 | 682 | 418 | 306 | 73.2057 | |
| jpowers-varprowl | INDEL | I6_15 | HG002complexvar | het | 76.9804 | 82.9299 | 71.8274 | 56.3262 | 1953 | 402 | 1981 | 777 | 772 | 99.3565 | |
| jpowers-varprowl | SNP | * | map_l250_m2_e0 | * | 95.0584 | 94.9017 | 95.2157 | 91.6500 | 7483 | 402 | 7483 | 376 | 93 | 24.7340 | |
| jli-custom | SNP | * | map_l100_m2_e0 | het | 99.2823 | 99.1336 | 99.4314 | 64.8428 | 45997 | 402 | 45994 | 263 | 62 | 23.5741 | |
| jli-custom | SNP | * | map_l100_m2_e1 | het | 99.2878 | 99.1428 | 99.4333 | 64.8837 | 46496 | 402 | 46493 | 265 | 62 | 23.3962 | |
| jli-custom | SNP | * | map_l100_m1_e0 | het | 99.2812 | 99.1159 | 99.4470 | 63.0672 | 44958 | 401 | 44955 | 250 | 62 | 24.8000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.9441 | 95.7602 | 98.1576 | 42.5181 | 9057 | 401 | 9057 | 170 | 166 | 97.6471 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.6141 | 91.5968 | 100.0000 | 29.3704 | 4371 | 401 | 4420 | 0 | 0 | ||
| gduggal-snapvard | SNP | tv | map_l100_m1_e0 | het | 92.4877 | 97.3990 | 88.0480 | 78.4967 | 15016 | 401 | 14962 | 2031 | 139 | 6.8439 | |
| gduggal-snapplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 401 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 42.3952 | 29.7723 | 73.6000 | 86.9452 | 170 | 401 | 184 | 66 | 26 | 39.3939 | |
| gduggal-snapfb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 100.0000 | 0.0000 | 0 | 401 | 1 | 0 | 0 | ||
| hfeng-pmm1 | SNP | * | map_l100_m1_e0 | het | 99.4173 | 99.1159 | 99.7205 | 63.9471 | 44958 | 401 | 44947 | 126 | 32 | 25.3968 | |
| cchapple-custom | SNP | ti | map_l150_m1_e0 | het | 95.9987 | 96.7583 | 95.2510 | 80.3175 | 11969 | 401 | 11974 | 597 | 158 | 26.4657 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 5.7971 | 3.3816 | 20.2899 | 80.2292 | 14 | 400 | 14 | 55 | 47 | 85.4545 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 78.5045 | 69.6510 | 89.9365 | 50.9342 | 918 | 400 | 992 | 111 | 111 | 100.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 90.6304 | 83.9615 | 98.4500 | 76.1644 | 2094 | 400 | 2096 | 33 | 8 | 24.2424 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.4617 | 94.1911 | 98.8445 | 26.3329 | 6486 | 400 | 6501 | 76 | 73 | 96.0526 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.0371 | 93.4243 | 94.6580 | 64.2218 | 5683 | 400 | 5564 | 314 | 298 | 94.9045 | |
| ltrigg-rtg2 | SNP | * | map_l250_m1_e0 | het | 95.5463 | 91.5878 | 99.8624 | 74.1983 | 4355 | 400 | 4355 | 6 | 1 | 16.6667 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 53.3029 | 36.7089 | 97.2763 | 43.3921 | 232 | 400 | 250 | 7 | 7 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 81.2086 | 91.0256 | 73.3029 | 53.9573 | 4047 | 399 | 4017 | 1463 | 1454 | 99.3848 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m2_e1 | * | 67.6724 | 54.1379 | 90.2299 | 81.0664 | 471 | 399 | 471 | 51 | 46 | 90.1961 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m0_e0 | * | 98.3571 | 96.8735 | 99.8869 | 59.3116 | 12363 | 399 | 12363 | 14 | 4 | 28.5714 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 94.6117 | 94.0740 | 95.1557 | 42.5447 | 6334 | 399 | 6325 | 322 | 313 | 97.2050 | |