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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12401-12450 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8636 | 99.8363 | 99.8908 | 48.6619 | 3660 | 6 | 3660 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.3072 | 97.2880 | 99.3480 | 72.0840 | 3659 | 102 | 3657 | 24 | 22 | 91.6667 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.3072 | 97.2880 | 99.3480 | 72.0840 | 3659 | 102 | 3657 | 24 | 22 | 91.6667 | |
| raldana-dualsentieon | INDEL | * | map_l100_m2_e1 | * | 97.9928 | 97.4175 | 98.5749 | 83.4180 | 3659 | 97 | 3666 | 53 | 13 | 24.5283 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.3774 | 93.8671 | 99.0257 | 55.4228 | 3658 | 239 | 3659 | 36 | 29 | 80.5556 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7545 | 99.7818 | 99.7273 | 51.7500 | 3658 | 8 | 3657 | 10 | 10 | 100.0000 | |
| ckim-dragen | INDEL | * | map_l100_m2_e1 | * | 97.0145 | 97.3908 | 96.6411 | 87.1665 | 3658 | 98 | 3654 | 127 | 20 | 15.7480 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4527 | 93.8414 | 99.2135 | 55.2222 | 3657 | 240 | 3658 | 29 | 24 | 82.7586 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.0434 | 93.0771 | 95.0299 | 54.7829 | 3657 | 272 | 3652 | 191 | 179 | 93.7173 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3750 | 99.1863 | 99.5644 | 51.3896 | 3657 | 30 | 3657 | 16 | 13 | 81.2500 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.6052 | 94.2754 | 99.0530 | 53.1678 | 3656 | 222 | 3661 | 35 | 17 | 48.5714 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3613 | 99.1592 | 99.5643 | 51.5120 | 3656 | 31 | 3656 | 16 | 13 | 81.2500 | |
| gduggal-bwavard | INDEL | * | HG002compoundhet | het | 23.2106 | 89.3014 | 13.3387 | 58.9532 | 3656 | 438 | 3793 | 24643 | 23937 | 97.1351 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 72.9905 | 59.8984 | 93.4066 | 85.0088 | 3655 | 2447 | 3655 | 258 | 42 | 16.2791 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7813 | 99.6999 | 99.8628 | 43.7307 | 3655 | 11 | 3639 | 5 | 5 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 73.3622 | 60.1943 | 93.9043 | 54.3233 | 3655 | 2417 | 3651 | 237 | 195 | 82.2785 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3072 | 99.1321 | 99.4829 | 51.2667 | 3655 | 32 | 3655 | 19 | 16 | 84.2105 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.9904 | 93.0008 | 95.0013 | 54.6571 | 3654 | 275 | 3649 | 192 | 181 | 94.2708 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.0814 | 91.6918 | 96.5990 | 62.3710 | 3653 | 331 | 3664 | 129 | 115 | 89.1473 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3201 | 99.0507 | 99.5909 | 51.8830 | 3652 | 35 | 3652 | 15 | 12 | 80.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 86.6043 | 76.5298 | 99.7333 | 31.0028 | 3652 | 1120 | 1496 | 4 | 4 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2793 | 99.0236 | 99.5363 | 51.7187 | 3651 | 36 | 3649 | 17 | 15 | 88.2353 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 85.5129 | 76.5088 | 96.9190 | 34.7374 | 3651 | 1121 | 3649 | 116 | 114 | 98.2759 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 73.1437 | 60.1120 | 93.3897 | 54.7163 | 3650 | 2422 | 3645 | 258 | 193 | 74.8062 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e1 | * | 97.3869 | 97.1778 | 97.5968 | 97.6235 | 3650 | 106 | 3655 | 90 | 41 | 45.5556 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2927 | 98.9965 | 99.5907 | 51.8966 | 3650 | 37 | 3650 | 15 | 12 | 80.0000 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7127 | 99.6993 | 99.7261 | 53.8549 | 3647 | 11 | 3641 | 10 | 3 | 30.0000 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7401 | 99.6720 | 99.8083 | 54.5545 | 3646 | 12 | 3645 | 7 | 2 | 28.5714 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.1325 | 94.2362 | 84.5533 | 48.1916 | 3646 | 223 | 3246 | 593 | 548 | 92.4115 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7674 | 99.6720 | 99.8630 | 53.6272 | 3646 | 12 | 3645 | 5 | 1 | 20.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5630 | 99.4272 | 99.6991 | 49.6904 | 3645 | 21 | 3645 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6854 | 99.4272 | 99.9450 | 44.5461 | 3645 | 21 | 3633 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7400 | 99.6173 | 99.8629 | 52.8317 | 3644 | 14 | 3643 | 5 | 1 | 20.0000 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e0 | * | 98.3285 | 98.6461 | 98.0129 | 85.9953 | 3643 | 50 | 3650 | 74 | 17 | 22.9730 | |
| ciseli-custom | SNP | tv | HG002compoundhet | het | 56.8474 | 77.9585 | 44.7336 | 53.7648 | 3643 | 1030 | 3678 | 4544 | 89 | 1.9586 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6989 | 99.5626 | 99.8355 | 53.1956 | 3642 | 16 | 3641 | 6 | 1 | 16.6667 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6443 | 99.5626 | 99.7262 | 54.5715 | 3642 | 16 | 3642 | 10 | 5 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6034 | 99.3181 | 99.8903 | 51.3153 | 3641 | 25 | 3642 | 4 | 4 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.7617 | 96.8094 | 92.7988 | 67.6203 | 3641 | 120 | 3634 | 282 | 273 | 96.8085 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.7617 | 96.8094 | 92.7988 | 67.6203 | 3641 | 120 | 3634 | 282 | 273 | 96.8085 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.5105 | 95.6899 | 99.4017 | 30.5702 | 3641 | 164 | 3655 | 22 | 22 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1285 | 98.7253 | 99.5351 | 51.6909 | 3640 | 47 | 3640 | 17 | 14 | 82.3529 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1826 | 98.7253 | 99.6441 | 48.7010 | 3640 | 47 | 3640 | 13 | 10 | 76.9231 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 89.7564 | 96.6277 | 83.7975 | 65.1703 | 3639 | 127 | 3641 | 704 | 688 | 97.7273 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 89.7564 | 96.6277 | 83.7975 | 65.1703 | 3639 | 127 | 3641 | 704 | 688 | 97.7273 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5350 | 99.4806 | 99.5894 | 54.0098 | 3639 | 19 | 3638 | 15 | 5 | 33.3333 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.7734 | 92.6190 | 94.9569 | 54.7101 | 3639 | 290 | 3634 | 193 | 182 | 94.3005 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 94.6431 | 90.7255 | 98.9142 | 65.3727 | 3639 | 372 | 3644 | 40 | 7 | 17.5000 | |
| ndellapenna-hhga | INDEL | * | map_l100_m2_e1 | * | 97.2360 | 96.8584 | 97.6165 | 97.7206 | 3638 | 118 | 3645 | 89 | 40 | 44.9438 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e0 | het | 44.0116 | 28.2431 | 99.6437 | 94.9202 | 3638 | 9243 | 3636 | 13 | 5 | 38.4615 | |