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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85251-85300 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 60.7416 | 67.9902 | 54.8896 | 38.6127 | 2226 | 1048 | 3755 | 3086 | 2432 | 78.8075 | |
| gduggal-snapplat | SNP | * | * | het | 98.7739 | 98.5851 | 98.9633 | 30.9812 | 1847092 | 26509 | 1848114 | 19360 | 2442 | 12.6136 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 85.4037 | 81.6845 | 89.4777 | 43.9514 | 29890 | 6702 | 33045 | 3886 | 2450 | 63.0468 | |
| anovak-vg | INDEL | I1_5 | HG002compoundhet | homalt | 40.4620 | 88.4498 | 26.2307 | 64.1465 | 291 | 38 | 1071 | 3012 | 2451 | 81.3745 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.1593 | 87.4776 | 88.8518 | 37.5644 | 21467 | 3073 | 21551 | 2704 | 2453 | 90.7175 | |
| mlin-fermikit | INDEL | * | HG002compoundhet | homalt | 32.9688 | 92.1283 | 20.0767 | 74.2148 | 632 | 54 | 628 | 2500 | 2465 | 98.6000 | |
| jlack-gatk | INDEL | * | HG002compoundhet | * | 91.0082 | 90.7410 | 91.2769 | 62.3551 | 27186 | 2774 | 27070 | 2587 | 2465 | 95.2841 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 81.2103 | 79.4781 | 83.0196 | 65.6096 | 14438 | 3728 | 14423 | 2950 | 2467 | 83.6271 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 81.2103 | 79.4781 | 83.0196 | 65.6096 | 14438 | 3728 | 14423 | 2950 | 2467 | 83.6271 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 68.2551 | 91.4186 | 54.4569 | 32.9265 | 522 | 49 | 2963 | 2478 | 2470 | 99.6772 | |
| ciseli-custom | INDEL | I6_15 | * | homalt | 49.3008 | 46.2895 | 52.7313 | 38.8345 | 2888 | 3351 | 2867 | 2570 | 2475 | 96.3035 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 71.5901 | 79.0706 | 65.4026 | 31.3787 | 2161 | 572 | 5036 | 2664 | 2476 | 92.9429 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 59.9212 | 54.8636 | 66.0058 | 31.4666 | 5189 | 4269 | 5194 | 2675 | 2487 | 92.9720 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.5891 | 93.3138 | 95.8997 | 71.5881 | 60123 | 4308 | 60061 | 2568 | 2492 | 97.0405 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.6741 | 97.8739 | 73.0725 | 38.0893 | 6537 | 142 | 6947 | 2560 | 2496 | 97.5000 | |
| gduggal-bwafb | INDEL | * | HG002compoundhet | homalt | 33.7522 | 95.9184 | 20.4793 | 75.1027 | 658 | 28 | 658 | 2555 | 2524 | 98.7867 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 50.2462 | 41.8069 | 62.9545 | 59.3735 | 2684 | 3736 | 6614 | 3892 | 2524 | 64.8510 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 50.2462 | 41.8069 | 62.9545 | 59.3735 | 2684 | 3736 | 6614 | 3892 | 2524 | 64.8510 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 47.4578 | 43.6627 | 51.9755 | 51.4637 | 2656 | 3427 | 2973 | 2747 | 2524 | 91.8821 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 89.8755 | 85.9451 | 94.1826 | 54.7512 | 56166 | 9185 | 55450 | 3425 | 2525 | 73.7226 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 89.8755 | 85.9451 | 94.1826 | 54.7512 | 56166 | 9185 | 55450 | 3425 | 2525 | 73.7226 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 51.2986 | 77.9991 | 38.2164 | 61.6156 | 1723 | 486 | 1727 | 2792 | 2527 | 90.5086 | |
| anovak-vg | INDEL | D6_15 | HG002compoundhet | * | 33.7576 | 27.6935 | 43.2221 | 33.8439 | 2501 | 6530 | 2707 | 3556 | 2531 | 71.1755 | |
| gduggal-snapvard | SNP | * | HG002complexvar | * | 97.8941 | 96.7741 | 99.0404 | 21.0357 | 730048 | 24336 | 708362 | 6863 | 2537 | 36.9663 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 88.2321 | 85.5737 | 91.0609 | 53.6742 | 26877 | 4531 | 26832 | 2634 | 2540 | 96.4313 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 88.2321 | 85.5737 | 91.0609 | 53.6742 | 26877 | 4531 | 26832 | 2634 | 2540 | 96.4313 | |
| gduggal-bwavard | SNP | * | HG002compoundhet | het | 83.4515 | 85.5762 | 81.4296 | 49.6147 | 12133 | 2045 | 13203 | 3011 | 2546 | 84.5566 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 39.2362 | 37.2842 | 41.4038 | 61.8887 | 2268 | 3815 | 2336 | 3306 | 2550 | 77.1325 | |
| anovak-vg | SNP | * | HG002compoundhet | het | 78.0560 | 77.3875 | 78.7362 | 46.6128 | 10972 | 3206 | 12323 | 3328 | 2553 | 76.7127 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.0966 | 87.6813 | 88.5158 | 38.7217 | 21517 | 3023 | 21589 | 2801 | 2559 | 91.3602 | |
| gduggal-bwavard | SNP | * | HG002compoundhet | * | 84.7137 | 82.2128 | 87.3715 | 45.7405 | 21229 | 4593 | 20991 | 3034 | 2565 | 84.5419 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 67.7487 | 63.3008 | 72.8688 | 42.9423 | 7015 | 4067 | 6975 | 2597 | 2576 | 99.1914 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 55.8126 | 45.6817 | 71.7174 | 42.4460 | 2888 | 3434 | 6598 | 2602 | 2576 | 99.0008 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 55.8126 | 45.6817 | 71.7174 | 42.4460 | 2888 | 3434 | 6598 | 2602 | 2576 | 99.0008 | |
| anovak-vg | SNP | ti | HG002compoundhet | * | 77.8164 | 75.3290 | 80.4737 | 38.3806 | 13166 | 4312 | 13522 | 3281 | 2578 | 78.5736 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 70.3371 | 62.5265 | 80.3777 | 56.0717 | 15344 | 9196 | 18388 | 4489 | 2592 | 57.7411 | |
| ciseli-custom | SNP | tv | HG002complexvar | homalt | 95.4763 | 98.8182 | 92.3530 | 24.8215 | 93987 | 1124 | 92583 | 7666 | 2593 | 33.8247 | |
| gduggal-snapplat | INDEL | * | * | het | 75.6756 | 70.3729 | 81.8427 | 68.5533 | 136617 | 57516 | 150007 | 33280 | 2606 | 7.8305 | |
| mlin-fermikit | INDEL | * | HG002complexvar | * | 95.4305 | 94.5346 | 96.3436 | 54.3245 | 72733 | 4205 | 72356 | 2746 | 2618 | 95.3387 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.5727 | 82.8140 | 84.3455 | 36.4989 | 15121 | 3138 | 15194 | 2820 | 2630 | 93.2624 | |
| ciseli-custom | INDEL | D1_5 | HG002complexvar | * | 84.6887 | 87.0694 | 82.4348 | 57.7103 | 28483 | 4230 | 28182 | 6005 | 2638 | 43.9301 | |
| ghariani-varprowl | SNP | * | * | * | 99.3496 | 99.8685 | 98.8361 | 25.2137 | 3050577 | 4016 | 3051086 | 35930 | 2639 | 7.3448 | |
| rpoplin-dv42 | INDEL | * | * | * | 98.9802 | 98.7882 | 99.1728 | 78.6199 | 340367 | 4175 | 340370 | 2839 | 2640 | 92.9905 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0167 | 98.2183 | 71.8900 | 39.0410 | 6560 | 119 | 6900 | 2698 | 2648 | 98.1468 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 47.1342 | 38.1966 | 61.5321 | 37.8247 | 2639 | 4270 | 5213 | 3259 | 2660 | 81.6201 | |
| jpowers-varprowl | SNP | * | * | * | 99.5004 | 99.5447 | 99.4561 | 23.3348 | 3040706 | 13908 | 3041157 | 16632 | 2670 | 16.0534 | |
| anovak-vg | SNP | * | map_l125_m1_e0 | het | 77.1793 | 90.4691 | 67.2939 | 76.7918 | 25686 | 2706 | 25425 | 12357 | 2688 | 21.7529 | |
| anovak-vg | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 46.7905 | 46.8317 | 46.7493 | 53.6445 | 1892 | 2148 | 3092 | 3522 | 2706 | 76.8313 | |
| gduggal-bwafb | INDEL | * | * | homalt | 98.0353 | 98.2688 | 97.8029 | 56.6087 | 123005 | 2167 | 122991 | 2763 | 2706 | 97.9370 | |
| jlack-gatk | INDEL | * | * | * | 98.6899 | 98.8138 | 98.5664 | 60.1151 | 340455 | 4087 | 340332 | 4950 | 2708 | 54.7071 | |