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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72701-72750 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 50.1828 | 34.9234 | 89.1245 | 58.3302 | 1984 | 3697 | 1975 | 241 | 212 | 87.9668 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9210 | 92.2462 | 93.6058 | 72.7642 | 1963 | 165 | 1947 | 133 | 117 | 87.9699 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 66.0268 | 75.3467 | 58.7588 | 41.5789 | 489 | 160 | 1174 | 824 | 725 | 87.9854 | |
| mlin-fermikit | SNP | * | map_l125_m2_e0 | * | 63.6201 | 49.9497 | 87.5929 | 61.7303 | 23338 | 23385 | 23333 | 3305 | 2908 | 87.9879 | |
| mlin-fermikit | SNP | * | map_l250_m0_e0 | * | 40.4330 | 27.1194 | 79.4239 | 82.2628 | 579 | 1556 | 579 | 150 | 132 | 88.0000 | |
| ltrigg-rtg2 | SNP | * | map_siren | homalt | 99.8557 | 99.7571 | 99.9546 | 50.5157 | 55022 | 134 | 55010 | 25 | 22 | 88.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.7774 | 93.1267 | 90.4666 | 45.7994 | 691 | 51 | 4033 | 425 | 374 | 88.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | HG002compoundhet | hetalt | 97.1229 | 94.8287 | 99.5310 | 57.0294 | 10599 | 578 | 10611 | 50 | 44 | 88.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.1761 | 91.8265 | 98.7793 | 33.6573 | 2011 | 179 | 2023 | 25 | 22 | 88.0000 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.8522 | 97.4079 | 98.3005 | 42.9181 | 1428 | 38 | 1446 | 25 | 22 | 88.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.3721 | 98.1869 | 96.5706 | 61.2646 | 704 | 13 | 704 | 25 | 22 | 88.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.5874 | 83.6820 | 94.1038 | 66.9782 | 400 | 78 | 399 | 25 | 22 | 88.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.3228 | 86.1277 | 97.1847 | 65.3666 | 863 | 139 | 863 | 25 | 22 | 88.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.0626 | 98.7852 | 99.3416 | 58.5661 | 3822 | 47 | 3772 | 25 | 22 | 88.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | * | * | 90.7186 | 84.0050 | 98.5984 | 48.4241 | 5357 | 1020 | 5276 | 75 | 66 | 88.0000 | |
| hfeng-pmm2 | SNP | * | HG002complexvar | homalt | 99.9776 | 99.9726 | 99.9827 | 20.0544 | 288495 | 79 | 288481 | 50 | 44 | 88.0000 | |
| egarrison-hhga | INDEL | D1_5 | segdup | * | 97.7335 | 97.7335 | 97.7335 | 94.3200 | 1078 | 25 | 1078 | 25 | 22 | 88.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 61.8938 | 45.0533 | 98.8388 | 35.9607 | 2450 | 2988 | 2128 | 25 | 22 | 88.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.5133 | 90.0694 | 99.4185 | 29.9723 | 4281 | 472 | 4274 | 25 | 22 | 88.0000 | |
| mlin-fermikit | SNP | ti | map_l100_m2_e0 | * | 73.5756 | 61.3876 | 91.8021 | 54.4848 | 30056 | 18905 | 30056 | 2684 | 2362 | 88.0030 | |
| ckim-dragen | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9722 | 98.8576 | 99.0871 | 73.7310 | 93370 | 1079 | 93240 | 859 | 756 | 88.0093 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 70.1373 | 58.7236 | 87.0583 | 47.6620 | 6082 | 4275 | 6061 | 901 | 793 | 88.0133 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 61.8858 | 52.4538 | 75.4536 | 73.3552 | 8433 | 7644 | 8318 | 2706 | 2382 | 88.0266 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 61.8858 | 52.4538 | 75.4536 | 73.3552 | 8433 | 7644 | 8318 | 2706 | 2382 | 88.0266 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 56.3704 | 41.2427 | 89.0242 | 57.5472 | 4580 | 6525 | 4607 | 568 | 500 | 88.0282 | |
| mlin-fermikit | SNP | * | map_l100_m2_e0 | * | 72.7370 | 60.6281 | 90.8897 | 55.5979 | 44843 | 29121 | 44835 | 4494 | 3956 | 88.0285 | |
| jpowers-varprowl | INDEL | * | segdup | het | 90.0339 | 94.9523 | 85.6000 | 95.0457 | 1392 | 74 | 1391 | 234 | 206 | 88.0342 | |
| mlin-fermikit | SNP | * | map_l150_m1_e0 | * | 56.5558 | 42.3405 | 85.1406 | 61.3631 | 12960 | 17649 | 12955 | 2261 | 1991 | 88.0584 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 79.0557 | 93.1620 | 68.6595 | 75.7645 | 5981 | 439 | 5926 | 2705 | 2382 | 88.0591 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 79.0557 | 93.1620 | 68.6595 | 75.7645 | 5981 | 439 | 5926 | 2705 | 2382 | 88.0591 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2241 | 98.9337 | 99.5161 | 74.5848 | 63744 | 687 | 63757 | 310 | 273 | 88.0645 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e0 | * | 71.0756 | 59.1180 | 89.0970 | 57.6083 | 14799 | 10234 | 14791 | 1810 | 1594 | 88.0663 | |
| gduggal-bwavard | INDEL | D1_5 | * | * | 90.6910 | 89.3918 | 92.0286 | 58.1851 | 131178 | 15567 | 129649 | 11230 | 9891 | 88.0766 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.0812 | 74.2799 | 86.8654 | 57.3222 | 13126 | 4545 | 13260 | 2005 | 1766 | 88.0798 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 80.0812 | 74.2799 | 86.8654 | 57.3222 | 13126 | 4545 | 13260 | 2005 | 1766 | 88.0798 | |
| gduggal-bwaplat | INDEL | D1_5 | HG002complexvar | homalt | 93.6134 | 89.6018 | 98.0010 | 59.6110 | 9496 | 1102 | 9462 | 193 | 170 | 88.0829 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 73.4486 | 61.1425 | 91.9567 | 37.2269 | 4431 | 2816 | 4413 | 386 | 340 | 88.0829 | |
| hfeng-pmm2 | INDEL | D6_15 | * | * | 98.0668 | 96.9186 | 99.2426 | 51.7103 | 25288 | 804 | 25288 | 193 | 170 | 88.0829 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.3558 | 97.1558 | 99.5859 | 47.3310 | 10111 | 296 | 10101 | 42 | 37 | 88.0952 | |
| jlack-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 92.4487 | 89.3386 | 95.7831 | 48.0438 | 905 | 108 | 954 | 42 | 37 | 88.0952 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.6093 | 91.9316 | 99.5935 | 30.0616 | 10209 | 896 | 10290 | 42 | 37 | 88.0952 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 95.7480 | 95.8991 | 95.5975 | 81.7695 | 912 | 39 | 912 | 42 | 37 | 88.0952 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2878 | 93.9576 | 98.7365 | 52.3236 | 3281 | 211 | 3282 | 42 | 37 | 88.0952 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.7046 | 95.7031 | 97.7273 | 60.0519 | 1715 | 77 | 1806 | 42 | 37 | 88.0952 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.2150 | 75.8321 | 97.2477 | 53.3761 | 1481 | 472 | 1484 | 42 | 37 | 88.0952 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.3424 | 97.9964 | 94.7434 | 73.1789 | 538 | 11 | 757 | 42 | 37 | 88.0952 | |
| mlin-fermikit | SNP | ti | map_l125_m2_e1 | * | 64.3036 | 50.3876 | 88.8389 | 61.3583 | 15403 | 15166 | 15402 | 1935 | 1705 | 88.1137 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 62.7608 | 46.6890 | 95.7058 | 37.3301 | 2228 | 2544 | 2251 | 101 | 89 | 88.1188 | |
| ltrigg-rtg1 | INDEL | I6_15 | * | homalt | 98.7666 | 98.4933 | 99.0414 | 43.6510 | 6145 | 94 | 6096 | 59 | 52 | 88.1356 | |
| jmaeng-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.8816 | 95.9653 | 93.8220 | 79.5053 | 3877 | 163 | 3584 | 236 | 208 | 88.1356 | |