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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13251-13300 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | I6_15 | * | het | 44.4423 | 31.4363 | 75.8046 | 53.6729 | 3154 | 6879 | 3227 | 1030 | 925 | 89.8058 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 93.7450 | 89.4498 | 98.4735 | 43.0447 | 3154 | 372 | 3161 | 49 | 44 | 89.7959 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 93.7450 | 89.4498 | 98.4735 | 43.0447 | 3154 | 372 | 3161 | 49 | 44 | 89.7959 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.9533 | 99.6209 | 96.3407 | 45.9172 | 3153 | 12 | 3133 | 119 | 118 | 99.1597 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.7464 | 96.2737 | 87.6259 | 45.7712 | 3152 | 122 | 8703 | 1229 | 548 | 44.5891 | |
| ckim-vqsr | SNP | tv | segdup | homalt | 98.5612 | 97.3132 | 99.8416 | 90.0895 | 3151 | 87 | 3151 | 5 | 5 | 100.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.5967 | 90.2348 | 97.2188 | 50.5577 | 3151 | 341 | 3146 | 90 | 73 | 81.1111 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.2162 | 86.6135 | 98.5938 | 42.4667 | 3151 | 487 | 3155 | 45 | 26 | 57.7778 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9318 | 99.4945 | 98.3755 | 50.6856 | 3149 | 16 | 3149 | 52 | 50 | 96.1538 | |
| gduggal-snapfb | SNP | ti | map_l250_m2_e1 | het | 94.1247 | 95.4229 | 92.8614 | 87.6593 | 3148 | 151 | 3148 | 242 | 125 | 51.6529 | |
| jmaeng-gatk | INDEL | * | HG002complexvar | hetalt | 91.1572 | 85.1041 | 98.1374 | 66.7119 | 3148 | 551 | 3372 | 64 | 64 | 100.0000 | |
| jli-custom | SNP | ti | map_l250_m2_e0 | het | 97.8393 | 96.7117 | 98.9934 | 87.4744 | 3147 | 107 | 3147 | 32 | 16 | 50.0000 | |
| asubramanian-gatk | INDEL | * | map_l100_m1_e0 | * | 92.0378 | 87.7579 | 96.7564 | 95.8853 | 3147 | 439 | 3162 | 106 | 17 | 16.0377 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.1611 | 91.0564 | 99.6533 | 48.4903 | 3146 | 309 | 3162 | 11 | 5 | 45.4545 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.0239 | 99.3681 | 98.6821 | 49.3000 | 3145 | 20 | 3145 | 42 | 42 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.9473 | 99.3365 | 94.6703 | 50.0000 | 3144 | 21 | 3144 | 177 | 175 | 98.8701 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9613 | 99.3365 | 98.5889 | 49.3810 | 3144 | 21 | 3144 | 45 | 43 | 95.5556 | |
| bgallagher-sentieon | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.8570 | 99.8412 | 99.8729 | 71.3127 | 3143 | 5 | 3143 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.3969 | 99.2733 | 95.5900 | 55.8480 | 3142 | 23 | 3143 | 145 | 133 | 91.7241 | |
| dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.8411 | 99.8094 | 99.8729 | 71.5397 | 3142 | 6 | 3142 | 4 | 3 | 75.0000 | |
| ckim-dragen | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7312 | 99.8094 | 99.6531 | 71.4710 | 3142 | 6 | 3160 | 11 | 8 | 72.7273 | |
| qzeng-custom | INDEL | D1_5 | map_siren | * | 93.2868 | 89.0337 | 97.9666 | 83.5685 | 3142 | 387 | 3228 | 67 | 43 | 64.1791 | |
| rpoplin-dv42 | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7460 | 99.8094 | 99.6827 | 70.4841 | 3142 | 6 | 3142 | 10 | 6 | 60.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.8093 | 99.7776 | 99.8411 | 72.0082 | 3141 | 7 | 3141 | 5 | 3 | 60.0000 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.8252 | 99.7776 | 99.8728 | 71.9221 | 3141 | 7 | 3141 | 4 | 3 | 75.0000 | |
| ckim-gatk | INDEL | D16_PLUS | * | het | 97.6163 | 99.3985 | 95.8968 | 79.2687 | 3140 | 19 | 2898 | 124 | 70 | 56.4516 | |
| mlin-fermikit | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.5257 | 96.6749 | 96.3770 | 70.3153 | 3140 | 108 | 3139 | 118 | 63 | 53.3898 | |
| qzeng-custom | SNP | ti | map_l150_m0_e0 | het | 73.7997 | 61.6049 | 92.0141 | 94.1071 | 3140 | 1957 | 3134 | 272 | 231 | 84.9265 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.9690 | 95.8766 | 98.0866 | 62.3435 | 3139 | 135 | 3127 | 61 | 59 | 96.7213 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 93.5628 | 88.9960 | 98.6237 | 42.7471 | 3138 | 388 | 3153 | 44 | 40 | 90.9091 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 93.5628 | 88.9960 | 98.6237 | 42.7471 | 3138 | 388 | 3153 | 44 | 40 | 90.9091 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 60.1249 | 45.9646 | 86.8947 | 58.2953 | 3138 | 3689 | 3176 | 479 | 423 | 88.3090 | |
| dgrover-gatk | INDEL | D16_PLUS | * | het | 97.8168 | 99.3036 | 96.3739 | 78.4222 | 3137 | 22 | 2897 | 109 | 66 | 60.5505 | |
| astatham-gatk | INDEL | D16_PLUS | * | het | 97.7337 | 99.3036 | 96.2126 | 78.4600 | 3137 | 22 | 2896 | 114 | 70 | 61.4035 | |
| bgallagher-sentieon | INDEL | D16_PLUS | * | het | 97.5876 | 99.3036 | 95.9298 | 78.0298 | 3137 | 22 | 2899 | 123 | 76 | 61.7886 | |
| jli-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7298 | 99.6506 | 99.8091 | 71.0989 | 3137 | 11 | 3137 | 6 | 4 | 66.6667 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7614 | 99.6188 | 99.9044 | 71.9607 | 3136 | 12 | 3136 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | * | het | 97.9651 | 99.2719 | 96.6923 | 79.4267 | 3136 | 23 | 2894 | 99 | 69 | 69.6970 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.1047 | 96.5517 | 66.9981 | 74.4486 | 3136 | 112 | 3167 | 1560 | 81 | 5.1923 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.4922 | 99.5870 | 99.3976 | 71.7079 | 3135 | 13 | 3135 | 19 | 9 | 47.3684 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 63.5703 | 52.8321 | 79.7871 | 32.1688 | 3134 | 2798 | 11092 | 2810 | 2788 | 99.2171 | |
| gduggal-snapplat | INDEL | I6_15 | * | hetalt | 52.6793 | 36.6390 | 93.7008 | 46.4917 | 3133 | 5418 | 3094 | 208 | 167 | 80.2885 | |
| gduggal-snapplat | INDEL | I6_15 | HG002compoundhet | hetalt | 53.1182 | 36.6874 | 96.2041 | 33.7320 | 3132 | 5405 | 3092 | 122 | 97 | 79.5082 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.8124 | 95.6628 | 97.9899 | 63.3939 | 3132 | 142 | 3120 | 64 | 61 | 95.3125 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.2450 | 95.6628 | 96.8343 | 65.6357 | 3132 | 142 | 3120 | 102 | 100 | 98.0392 | |
| ckim-dragen | INDEL | D16_PLUS | * | het | 97.5880 | 99.0820 | 96.1385 | 80.1270 | 3130 | 29 | 2888 | 116 | 38 | 32.7586 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | het | 97.5431 | 99.0503 | 96.0810 | 78.7734 | 3129 | 30 | 2893 | 118 | 85 | 72.0339 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3508 | 99.3647 | 99.3369 | 68.1260 | 3128 | 20 | 3146 | 21 | 3 | 14.2857 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e0 | het | 82.6056 | 96.1278 | 72.4186 | 92.5288 | 3128 | 126 | 3114 | 1186 | 65 | 5.4806 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.8080 | 95.5101 | 98.1417 | 64.0023 | 3127 | 147 | 3116 | 59 | 57 | 96.6102 | |