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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13401-13450 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 50.5393 | 38.0488 | 75.2381 | 84.0909 | 78 | 127 | 79 | 26 | 25 | 96.1538 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 50.5393 | 38.0488 | 75.2381 | 84.0909 | 78 | 127 | 79 | 26 | 25 | 96.1538 | |
| ghariani-varprowl | SNP | * | map_l150_m1_e0 | homalt | 98.8738 | 98.1283 | 99.6307 | 72.3027 | 11062 | 211 | 11062 | 41 | 25 | 60.9756 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | homalt | 98.9108 | 98.1879 | 99.6443 | 74.5311 | 11487 | 212 | 11487 | 41 | 25 | 60.9756 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | homalt | 98.9183 | 98.1990 | 99.6482 | 74.5368 | 11614 | 213 | 11614 | 41 | 25 | 60.9756 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2458 | 98.7161 | 99.7811 | 57.1497 | 19607 | 255 | 19600 | 43 | 25 | 58.1395 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 34.7356 | 24.1158 | 62.0690 | 73.8149 | 75 | 236 | 72 | 44 | 25 | 56.8182 | |
| ghariani-varprowl | INDEL | * | map_siren | homalt | 94.2088 | 91.6008 | 96.9697 | 74.6820 | 2432 | 223 | 2432 | 76 | 25 | 32.8947 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 17.8608 | 9.9044 | 90.8088 | 60.0587 | 373 | 3393 | 247 | 25 | 25 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 17.8608 | 9.9044 | 90.8088 | 60.0587 | 373 | 3393 | 247 | 25 | 25 | 100.0000 | |
| gduggal-snapvard | SNP | * | map_l150_m2_e0 | homalt | 97.6688 | 95.7005 | 99.7199 | 73.1870 | 11196 | 503 | 11035 | 31 | 25 | 80.6452 | |
| gduggal-snapvard | SNP | * | map_l150_m2_e1 | homalt | 97.6681 | 95.6963 | 99.7228 | 73.2280 | 11318 | 509 | 11153 | 31 | 25 | 80.6452 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 81.3544 | 99.1233 | 68.9877 | 64.3634 | 3844 | 34 | 3864 | 1737 | 25 | 1.4393 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 80.5645 | 99.0173 | 67.9091 | 64.2303 | 2519 | 25 | 2569 | 1214 | 25 | 2.0593 | |
| gduggal-snapplat | INDEL | * | map_l125_m1_e0 | * | 81.4439 | 74.1813 | 90.2830 | 92.9787 | 1563 | 544 | 1691 | 182 | 25 | 13.7363 | |
| gduggal-snapplat | INDEL | * | map_l125_m2_e0 | * | 81.6618 | 74.5446 | 90.2813 | 93.3861 | 1637 | 559 | 1765 | 190 | 25 | 13.1579 | |
| gduggal-snapplat | INDEL | * | map_l125_m2_e1 | * | 81.5919 | 74.4270 | 90.2834 | 93.4615 | 1656 | 569 | 1784 | 192 | 25 | 13.0208 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 88.7503 | 87.5000 | 90.0369 | 78.1275 | 252 | 36 | 244 | 27 | 25 | 92.5926 | |
| rpoplin-dv42 | SNP | ti | map_l125_m1_e0 | homalt | 99.5372 | 99.3119 | 99.7635 | 66.3061 | 10969 | 76 | 10969 | 26 | 25 | 96.1538 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 92.7288 | 90.2597 | 95.3368 | 64.7810 | 556 | 60 | 552 | 27 | 25 | 92.5926 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.8528 | 88.9193 | 99.3658 | 31.1088 | 4550 | 567 | 4544 | 29 | 25 | 86.2069 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.8012 | 88.8400 | 99.3492 | 39.7743 | 5047 | 634 | 5038 | 33 | 25 | 75.7576 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.2777 | 89.5819 | 99.4931 | 26.8704 | 6492 | 755 | 6477 | 33 | 25 | 75.7576 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5195 | 99.4061 | 99.6332 | 48.7604 | 10042 | 60 | 10049 | 37 | 25 | 67.5676 | |
| egarrison-hhga | SNP | ti | segdup | * | 99.6343 | 99.7134 | 99.5554 | 88.9440 | 19481 | 56 | 19481 | 87 | 25 | 28.7356 | |
| egarrison-hhga | SNP | tv | map_siren | * | 99.6246 | 99.3686 | 99.8818 | 55.8072 | 45640 | 290 | 45640 | 54 | 25 | 46.2963 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 72.1649 | 94.3008 | 0 | 0 | 70 | 27 | 25 | 92.5926 | |
| dgrover-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8663 | 99.9256 | 99.8070 | 53.0009 | 13438 | 10 | 13443 | 26 | 25 | 96.1538 | |
| dgrover-gatk | SNP | * | map_l250_m2_e0 | het | 98.1270 | 98.3442 | 97.9107 | 91.4879 | 5108 | 86 | 5108 | 109 | 25 | 22.9358 | |
| dgrover-gatk | SNP | * | map_l250_m2_e1 | het | 98.1329 | 98.3473 | 97.9194 | 91.5436 | 5177 | 87 | 5177 | 110 | 25 | 22.7273 | |
| dgrover-gatk | SNP | ti | map_l125_m0_e0 | het | 98.8408 | 99.0802 | 98.6026 | 80.1354 | 8187 | 76 | 8185 | 116 | 25 | 21.5517 | |
| ckim-vqsr | SNP | ti | map_siren | * | 86.3605 | 76.1935 | 99.6585 | 68.7036 | 76464 | 23891 | 76451 | 262 | 25 | 9.5420 | |
| ckim-isaac | SNP | tv | map_siren | * | 81.9877 | 69.5646 | 99.8126 | 55.0084 | 31951 | 13979 | 31956 | 60 | 25 | 41.6667 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.6796 | 92.5249 | 90.8497 | 49.7124 | 557 | 45 | 556 | 56 | 25 | 44.6429 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.1419 | 76.6600 | 90.8213 | 72.4184 | 381 | 116 | 376 | 38 | 25 | 65.7895 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0480 | 100.0000 | 96.1708 | 73.2150 | 653 | 0 | 653 | 26 | 25 | 96.1538 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.1964 | 100.0000 | 89.0295 | 69.3402 | 211 | 0 | 211 | 26 | 25 | 96.1538 | |
| ckim-vqsr | SNP | * | HG002compoundhet | het | 99.1735 | 98.5964 | 99.7573 | 46.7768 | 13979 | 199 | 13977 | 34 | 25 | 73.5294 | |
| ckim-vqsr | SNP | ti | * | homalt | 99.0608 | 98.1423 | 99.9967 | 16.3042 | 788120 | 14918 | 788111 | 26 | 25 | 96.1538 | |
| anovak-vg | INDEL | C1_5 | * | * | 51.8752 | 80.0000 | 38.3817 | 91.6130 | 8 | 2 | 185 | 297 | 25 | 8.4175 | |
| anovak-vg | INDEL | D1_5 | map_l150_m0_e0 | het | 78.2898 | 82.6733 | 74.3478 | 93.3870 | 167 | 35 | 171 | 59 | 25 | 42.3729 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 80.4268 | 75.9398 | 85.4772 | 80.3586 | 202 | 64 | 206 | 35 | 25 | 71.4286 | |
| 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 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 36.7207 | 26.5537 | 59.5041 | 62.8834 | 47 | 130 | 72 | 49 | 25 | 51.0204 | |
| anovak-vg | INDEL | I6_15 | map_l100_m2_e0 | * | 53.4759 | 49.1379 | 58.6538 | 81.9130 | 57 | 59 | 61 | 43 | 25 | 58.1395 | |
| anovak-vg | INDEL | I6_15 | map_l100_m2_e1 | * | 53.2425 | 49.1379 | 58.0952 | 82.0819 | 57 | 59 | 61 | 44 | 25 | 56.8182 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.1094 | 96.1467 | 98.0916 | 47.8953 | 1547 | 62 | 1542 | 30 | 25 | 83.3333 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | homalt | 84.1702 | 73.1719 | 99.0595 | 77.5693 | 2992 | 1097 | 2949 | 28 | 25 | 89.2857 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.2004 | 96.2658 | 96.1350 | 51.4737 | 1521 | 59 | 1567 | 63 | 25 | 39.6825 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.0448 | 95.6587 | 96.4340 | 58.7351 | 1278 | 58 | 1271 | 47 | 25 | 53.1915 | |