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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
82101-82150 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e1 | homalt | 99.8051 | 99.6810 | 99.9295 | 59.8306 | 18435 | 59 | 18434 | 13 | 13 | 100.0000 | |
| gduggal-snapvard | SNP | ti | map_l125_m2_e1 | het | 91.7986 | 96.5945 | 87.4564 | 82.3224 | 18437 | 650 | 18295 | 2624 | 207 | 7.8887 | |
| raldana-dualsentieon | SNP | ti | map_l100_m2_e1 | homalt | 99.8214 | 99.7134 | 99.9296 | 58.8080 | 18441 | 53 | 18441 | 13 | 12 | 92.3077 | |
| ltrigg-rtg1 | SNP | ti | map_l100_m2_e1 | homalt | 99.8025 | 99.7242 | 99.8809 | 61.9106 | 18443 | 51 | 18443 | 22 | 22 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m2_e0 | het | 98.7318 | 97.7485 | 99.7352 | 62.6803 | 18451 | 425 | 18453 | 49 | 7 | 14.2857 | |
| egarrison-hhga | SNP | ti | map_l100_m2_e1 | homalt | 99.8593 | 99.7891 | 99.9296 | 62.7744 | 18455 | 39 | 18455 | 13 | 13 | 100.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.9138 | 82.9573 | 84.8926 | 46.2434 | 18458 | 3792 | 18538 | 3299 | 3068 | 92.9979 | |
| gduggal-snapfb | SNP | * | map_l125_m0_e0 | * | 95.4423 | 95.2231 | 95.6625 | 77.2744 | 18459 | 926 | 18460 | 837 | 394 | 47.0729 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.6346 | 82.9843 | 84.2953 | 47.3907 | 18464 | 3786 | 18534 | 3453 | 3234 | 93.6577 | |
| hfeng-pmm1 | SNP | ti | map_l100_m2_e1 | homalt | 99.8621 | 99.8432 | 99.8810 | 62.5754 | 18465 | 29 | 18465 | 22 | 12 | 54.5455 | |
| hfeng-pmm3 | SNP | ti | map_l100_m2_e1 | homalt | 99.8675 | 99.8540 | 99.8810 | 62.4833 | 18467 | 27 | 18467 | 22 | 12 | 54.5455 | |
| eyeh-varpipe | SNP | ti | map_l100_m2_e1 | homalt | 99.8795 | 99.8756 | 99.8834 | 64.4482 | 18471 | 23 | 17986 | 21 | 12 | 57.1429 | |
| hfeng-pmm2 | SNP | ti | map_l100_m2_e1 | homalt | 99.8756 | 99.8810 | 99.8702 | 62.5670 | 18472 | 22 | 18472 | 24 | 14 | 58.3333 | |
| ckim-isaac | SNP | * | map_l125_m2_e0 | het | 77.2355 | 63.0466 | 99.6657 | 75.2911 | 18484 | 10834 | 18486 | 62 | 10 | 16.1290 | |
| ckim-isaac | SNP | ti | map_l125_m2_e1 | * | 75.3035 | 60.4665 | 99.7895 | 72.3331 | 18484 | 12085 | 18484 | 39 | 8 | 20.5128 | |
| ndellapenna-hhga | SNP | ti | map_l125_m2_e0 | het | 98.8804 | 98.0239 | 99.7520 | 70.6633 | 18503 | 373 | 18503 | 46 | 20 | 43.4783 | |
| jpowers-varprowl | SNP | * | map_l150_m1_e0 | het | 96.1124 | 95.8014 | 96.4254 | 81.4447 | 18505 | 811 | 18505 | 686 | 205 | 29.8834 | |
| anovak-vg | SNP | ti | map_l100_m0_e0 | * | 81.1499 | 85.0168 | 77.6195 | 74.1271 | 18509 | 3262 | 18364 | 5295 | 1408 | 26.5911 | |
| gduggal-snapvard | SNP | * | map_l125_m0_e0 | * | 90.5380 | 95.5326 | 86.0396 | 81.8589 | 18519 | 866 | 18286 | 2967 | 202 | 6.8082 | |
| gduggal-bwaplat | SNP | ti | map_l125_m2_e0 | * | 75.8315 | 61.2995 | 99.3947 | 87.0105 | 18548 | 11710 | 18555 | 113 | 34 | 30.0885 | |
| cchapple-custom | SNP | ti | map_l125_m2_e1 | het | 96.4352 | 97.1970 | 95.6851 | 78.2763 | 18552 | 535 | 18561 | 837 | 229 | 27.3596 | |
| gduggal-snapplat | SNP | * | map_l150_m2_e0 | het | 92.7026 | 92.2615 | 93.1480 | 87.6370 | 18575 | 1558 | 18597 | 1368 | 748 | 54.6784 | |
| gduggal-bwaplat | SNP | * | map_l100_m0_e0 | * | 72.1141 | 56.5817 | 99.4011 | 87.0646 | 18582 | 14259 | 18588 | 112 | 36 | 32.1429 | |
| gduggal-snapfb | SNP | ti | map_l125_m2_e1 | het | 96.4982 | 97.3699 | 95.6419 | 73.0724 | 18585 | 502 | 18588 | 847 | 395 | 46.6352 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m2_e1 | het | 98.5813 | 97.3804 | 99.8121 | 58.3672 | 18587 | 500 | 18589 | 35 | 4 | 11.4286 | |
| jpowers-varprowl | SNP | * | map_l125_m0_e0 | * | 96.4836 | 95.9660 | 97.0068 | 80.1786 | 18603 | 782 | 18603 | 574 | 180 | 31.3589 | |
| anovak-vg | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 86.9581 | 84.9537 | 89.0595 | 73.1224 | 18604 | 3295 | 18674 | 2294 | 1762 | 76.8091 | |
| gduggal-snapplat | SNP | ti | map_l150_m2_e0 | * | 93.1515 | 90.7274 | 95.7087 | 84.4902 | 18610 | 1902 | 18623 | 835 | 473 | 56.6467 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 85.0825 | 75.8761 | 96.8314 | 49.6990 | 18620 | 5920 | 18611 | 609 | 395 | 64.8604 | |
| ltrigg-rtg2 | SNP | * | map_l150_m1_e0 | het | 98.0986 | 96.4227 | 99.8338 | 58.7339 | 18625 | 691 | 18625 | 31 | 2 | 6.4516 | |
| cchapple-custom | SNP | * | map_l125_m0_e0 | * | 96.1705 | 96.0794 | 96.2618 | 77.2988 | 18625 | 760 | 18618 | 723 | 176 | 24.3430 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 76.4238 | 95.1325 | 63.8642 | 77.1773 | 18626 | 953 | 18983 | 10741 | 319 | 2.9699 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 76.4238 | 95.1325 | 63.8642 | 77.1773 | 18626 | 953 | 18983 | 10741 | 319 | 2.9699 | |
| gduggal-bwafb | SNP | ti | map_l125_m2_e0 | het | 98.5978 | 98.7179 | 98.4780 | 75.9201 | 18634 | 242 | 18634 | 288 | 78 | 27.0833 | |
| gduggal-bwavard | SNP | ti | map_l125_m2_e1 | het | 94.6705 | 97.6529 | 91.8649 | 83.0811 | 18639 | 448 | 18497 | 1638 | 107 | 6.5324 | |
| egarrison-hhga | SNP | ti | map_l125_m2_e0 | het | 99.2599 | 98.7550 | 99.7699 | 71.8619 | 18641 | 235 | 18641 | 43 | 16 | 37.2093 | |
| jli-custom | SNP | ti | map_l125_m2_e0 | het | 99.1286 | 98.8398 | 99.4191 | 70.5575 | 18657 | 219 | 18655 | 109 | 33 | 30.2752 | |
| ghariani-varprowl | SNP | ti | map_l125_m2_e0 | het | 97.6605 | 98.8557 | 96.4939 | 79.1594 | 18660 | 216 | 18660 | 678 | 143 | 21.0914 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m2_e1 | het | 98.7433 | 97.7681 | 99.7381 | 62.7777 | 18661 | 426 | 18663 | 49 | 7 | 14.2857 | |
| hfeng-pmm1 | SNP | ti | map_l125_m2_e0 | het | 99.2396 | 98.8716 | 99.6103 | 71.4782 | 18663 | 213 | 18659 | 73 | 18 | 24.6575 | |
| egarrison-hhga | INDEL | * | HG002compoundhet | hetalt | 84.8570 | 74.1223 | 99.2275 | 55.5672 | 18664 | 6516 | 18112 | 141 | 123 | 87.2340 | |
| raldana-dualsentieon | SNP | ti | map_l125_m2_e0 | het | 98.7385 | 98.9087 | 98.5689 | 73.7413 | 18670 | 206 | 18666 | 271 | 3 | 1.1070 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 94.5490 | 94.0187 | 95.0853 | 75.2577 | 18674 | 1188 | 18786 | 971 | 814 | 83.8311 | |
| rpoplin-dv42 | SNP | ti | map_l125_m2_e0 | het | 99.1665 | 98.9669 | 99.3669 | 71.7774 | 18681 | 195 | 18677 | 119 | 74 | 62.1849 | |
| gduggal-snapvard | SNP | * | map_l150_m1_e0 | het | 89.3113 | 96.7385 | 82.9433 | 83.9813 | 18686 | 630 | 18464 | 3797 | 256 | 6.7422 | |
| ckim-dragen | SNP | ti | map_l125_m2_e0 | het | 97.7337 | 99.0305 | 96.4704 | 78.2642 | 18693 | 183 | 18695 | 684 | 65 | 9.5029 | |
| jlack-gatk | SNP | ti | map_l125_m2_e0 | het | 95.3314 | 99.0570 | 91.8760 | 83.3511 | 18698 | 178 | 18694 | 1653 | 140 | 8.4695 | |
| mlin-fermikit | SNP | * | map_l100_m2_e0 | homalt | 74.2855 | 67.9468 | 81.9285 | 52.5634 | 18701 | 8822 | 18701 | 4125 | 3945 | 95.6364 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 94.5094 | 94.1647 | 94.8565 | 75.2918 | 18703 | 1159 | 18774 | 1018 | 858 | 84.2829 | |
| egarrison-hhga | INDEL | * | * | hetalt | 84.7197 | 74.1293 | 98.8404 | 62.3270 | 18708 | 6529 | 18156 | 213 | 191 | 89.6714 | |