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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18401-18450 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.8425 | 93.0514 | 98.8062 | 60.2346 | 616 | 46 | 1407 | 17 | 12 | 70.5882 | |
| ndellapenna-hhga | INDEL | D16_PLUS | HG002complexvar | homalt | 84.2511 | 94.1176 | 76.2570 | 66.9437 | 272 | 17 | 273 | 85 | 60 | 70.5882 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.5687 | 99.2552 | 99.8842 | 53.3003 | 14660 | 110 | 14664 | 17 | 12 | 70.5882 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.3117 | 97.1963 | 99.4531 | 73.3782 | 6240 | 180 | 6183 | 34 | 24 | 70.5882 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.3117 | 97.1963 | 99.4531 | 73.3782 | 6240 | 180 | 6183 | 34 | 24 | 70.5882 | |
| rpoplin-dv42 | SNP | tv | map_l250_m0_e0 | het | 97.0280 | 97.0280 | 97.0280 | 91.3647 | 555 | 17 | 555 | 17 | 12 | 70.5882 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7677 | 99.7111 | 99.8244 | 68.3834 | 9664 | 28 | 9664 | 17 | 12 | 70.5882 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.8598 | 93.2331 | 98.6389 | 71.3663 | 1240 | 90 | 1232 | 17 | 12 | 70.5882 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.0651 | 97.0076 | 99.1459 | 33.5614 | 3955 | 122 | 3947 | 34 | 24 | 70.5882 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.0573 | 78.4689 | 90.5028 | 57.9812 | 164 | 45 | 162 | 17 | 12 | 70.5882 | |
| dgrover-gatk | SNP | * | HG002compoundhet | * | 99.8063 | 99.8102 | 99.8025 | 41.2435 | 25773 | 49 | 25766 | 51 | 36 | 70.5882 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 55.0422 | 49.2827 | 62.3260 | 55.4966 | 1168 | 1202 | 1254 | 758 | 535 | 70.5805 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.2270 | 94.3394 | 98.1917 | 57.1762 | 7933 | 476 | 7928 | 146 | 103 | 70.5479 | |
| qzeng-custom | SNP | ti | map_siren | * | 92.5421 | 86.8188 | 99.0732 | 61.8902 | 87127 | 13228 | 86370 | 808 | 570 | 70.5446 | |
| rpoplin-dv42 | SNP | ti | map_l150_m1_e0 | * | 99.1152 | 98.8890 | 99.3424 | 73.3921 | 19493 | 219 | 19489 | 129 | 91 | 70.5426 | |
| anovak-vg | SNP | ti | func_cds | * | 98.6277 | 98.0852 | 99.1763 | 27.7317 | 13523 | 264 | 13486 | 112 | 79 | 70.5357 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 77.4939 | 68.7532 | 88.7808 | 66.4783 | 1329 | 604 | 1369 | 173 | 122 | 70.5202 | |
| eyeh-varpipe | INDEL | D1_5 | HG002complexvar | het | 98.4401 | 97.6258 | 99.2681 | 46.7116 | 20272 | 493 | 18853 | 139 | 98 | 70.5036 | |
| ciseli-custom | INDEL | * | * | * | 83.5453 | 82.5314 | 84.5844 | 60.0787 | 284352 | 60186 | 284718 | 51890 | 36584 | 70.5030 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 92.5726 | 90.3810 | 94.8730 | 43.3628 | 1945 | 207 | 1943 | 105 | 74 | 70.4762 | |
| jpowers-varprowl | INDEL | * | map_l125_m2_e0 | het | 92.9134 | 93.3142 | 92.5160 | 89.8956 | 1298 | 93 | 1298 | 105 | 74 | 70.4762 | |
| gduggal-snapvard | INDEL | D1_5 | HG002complexvar | het | 89.8124 | 96.1325 | 84.2721 | 56.4465 | 19960 | 803 | 25510 | 4761 | 3355 | 70.4684 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m1_e0 | * | 93.9404 | 91.4862 | 96.5300 | 83.1405 | 1225 | 114 | 1224 | 44 | 31 | 70.4545 | |
| jli-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.7287 | 96.3493 | 99.1483 | 61.3786 | 5120 | 194 | 5122 | 44 | 31 | 70.4545 | |
| eyeh-varpipe | INDEL | * | map_l125_m1_e0 | * | 96.4644 | 96.0133 | 96.9198 | 94.1307 | 2023 | 84 | 2769 | 88 | 62 | 70.4545 | |
| ciseli-custom | SNP | ti | map_l250_m1_e0 | homalt | 81.9434 | 80.0871 | 83.8878 | 86.5926 | 1287 | 320 | 1286 | 247 | 174 | 70.4453 | |
| gduggal-snapplat | INDEL | I1_5 | HG002complexvar | hetalt | 55.6197 | 42.0046 | 82.2940 | 85.5161 | 725 | 1001 | 739 | 159 | 112 | 70.4403 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 84.9493 | 79.0158 | 91.8463 | 60.4412 | 3950 | 1049 | 3920 | 348 | 245 | 70.4023 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 84.9493 | 79.0158 | 91.8463 | 60.4412 | 3950 | 1049 | 3920 | 348 | 245 | 70.4023 | |
| anovak-vg | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 85.1154 | 90.5013 | 80.3346 | 69.7300 | 30079 | 3157 | 33518 | 8205 | 5776 | 70.3961 | |
| anovak-vg | INDEL | D16_PLUS | * | homalt | 77.8556 | 75.0591 | 80.8685 | 58.6629 | 1270 | 422 | 1285 | 304 | 214 | 70.3947 | |
| gduggal-snapfb | INDEL | D1_5 | HG002complexvar | homalt | 96.3093 | 96.7164 | 95.9056 | 58.3612 | 10250 | 348 | 10283 | 439 | 309 | 70.3872 | |
| egarrison-hhga | INDEL | * | HG002complexvar | homalt | 98.5044 | 98.8604 | 98.1509 | 53.6323 | 26719 | 308 | 26700 | 503 | 354 | 70.3777 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 54.2373 | 95.3978 | 0 | 0 | 32 | 27 | 19 | 70.3704 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 62.7586 | 94.9565 | 0 | 0 | 91 | 54 | 38 | 70.3704 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002compoundhet | het | 50.9653 | 70.2128 | 40.0000 | 86.0681 | 33 | 14 | 36 | 54 | 38 | 70.3704 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 66.4762 | 60.4839 | 73.7864 | 99.9217 | 75 | 49 | 76 | 27 | 19 | 70.3704 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2885 | 97.1365 | 99.4681 | 47.3280 | 10109 | 298 | 10098 | 54 | 38 | 70.3704 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 66.4196 | 55.6522 | 82.3529 | 58.1967 | 128 | 102 | 126 | 27 | 19 | 70.3704 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.2350 | 95.0135 | 97.4884 | 66.2374 | 705 | 37 | 1048 | 27 | 19 | 70.3704 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 62.3434 | 46.3628 | 95.1351 | 82.5307 | 529 | 612 | 528 | 27 | 19 | 70.3704 | |
| gduggal-snapplat | SNP | * | HG002compoundhet | homalt | 94.8523 | 93.4799 | 96.2656 | 42.1750 | 10079 | 703 | 10002 | 388 | 273 | 70.3608 | |
| ckim-gatk | INDEL | I16_PLUS | * | * | 97.3609 | 96.6128 | 98.1207 | 70.7109 | 6161 | 216 | 6161 | 118 | 83 | 70.3390 | |
| ghariani-varprowl | SNP | * | map_l100_m1_e0 | homalt | 99.3219 | 98.9853 | 99.6607 | 61.9023 | 26729 | 274 | 26729 | 91 | 64 | 70.3297 | |
| anovak-vg | INDEL | D16_PLUS | HG002complexvar | * | 63.7181 | 53.0736 | 79.7034 | 53.6711 | 872 | 771 | 860 | 219 | 154 | 70.3196 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3204 | 98.9679 | 99.6754 | 59.9358 | 19657 | 205 | 19650 | 64 | 45 | 70.3125 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.2734 | 94.2029 | 64.0777 | 91.7797 | 65 | 4 | 66 | 37 | 26 | 70.2703 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 44.8523 | 34.5009 | 64.0777 | 67.1975 | 197 | 374 | 198 | 111 | 78 | 70.2703 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 45.1864 | 43.7705 | 46.6970 | 66.0012 | 4409 | 5664 | 4517 | 5156 | 3623 | 70.2676 | |
| qzeng-custom | INDEL | D1_5 | * | * | 98.2982 | 97.8575 | 98.7428 | 57.2067 | 143601 | 3144 | 144677 | 1842 | 1294 | 70.2497 | |