PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10101-10150 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.3938 | 98.9601 | 99.8314 | 43.2370 | 8279 | 87 | 8291 | 14 | 13 | 92.8571 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3937 | 99.6425 | 99.1462 | 42.0410 | 18118 | 65 | 18115 | 156 | 2 | 1.2821 | |
| ghariani-varprowl | SNP | * | func_cds | het | 99.3937 | 99.8746 | 98.9174 | 34.8349 | 11147 | 14 | 11147 | 122 | 2 | 1.6393 | |
| dgrover-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3936 | 99.8748 | 98.9170 | 66.2587 | 17546 | 22 | 17536 | 192 | 15 | 7.8125 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3936 | 99.0937 | 99.6953 | 60.8166 | 1640 | 15 | 1636 | 5 | 3 | 60.0000 | |
| jlack-gatk | SNP | ti | map_l100_m2_e0 | homalt | 99.3934 | 98.8858 | 99.9062 | 60.1223 | 18105 | 204 | 18105 | 17 | 15 | 88.2353 | |
| egarrison-hhga | SNP | ti | map_l100_m2_e0 | het | 99.3933 | 98.9779 | 99.8123 | 65.4669 | 30309 | 313 | 30310 | 57 | 18 | 31.5789 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3932 | 99.3932 | 99.3932 | 71.3192 | 819 | 5 | 819 | 5 | 1 | 20.0000 | |
| egarrison-hhga | SNP | ti | map_l100_m1_e0 | het | 99.3929 | 98.9713 | 99.8181 | 63.9434 | 29634 | 308 | 29635 | 54 | 18 | 33.3333 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3929 | 99.1153 | 99.6722 | 49.8944 | 4257 | 38 | 4257 | 14 | 3 | 21.4286 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3929 | 99.1600 | 99.6269 | 75.2923 | 5076 | 43 | 5074 | 19 | 13 | 68.4211 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3928 | 99.9061 | 98.8848 | 68.5288 | 1064 | 1 | 1064 | 12 | 12 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3928 | 99.9061 | 98.8848 | 68.4550 | 1064 | 1 | 1064 | 12 | 12 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3925 | 99.2718 | 99.5134 | 71.4682 | 818 | 6 | 818 | 4 | 1 | 25.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3917 | 99.1505 | 99.6341 | 69.2077 | 817 | 7 | 817 | 3 | 1 | 33.3333 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.3915 | 99.3915 | 99.3915 | 54.5622 | 490 | 3 | 490 | 3 | 2 | 66.6667 | |
| jlack-gatk | SNP | ti | map_l100_m2_e1 | homalt | 99.3913 | 98.8807 | 99.9071 | 60.0864 | 18287 | 207 | 18287 | 17 | 15 | 88.2353 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3913 | 99.3241 | 99.4585 | 49.1657 | 2939 | 20 | 2939 | 16 | 3 | 18.7500 | |
| hfeng-pmm2 | INDEL | * | * | het | 99.3911 | 99.1521 | 99.6313 | 58.9414 | 192487 | 1646 | 192126 | 711 | 412 | 57.9466 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.3909 | 99.0035 | 99.7815 | 31.9351 | 4570 | 46 | 4566 | 10 | 2 | 20.0000 | |
| jmaeng-gatk | INDEL | I1_5 | * | het | 99.3909 | 99.5129 | 99.2691 | 62.3588 | 78656 | 385 | 78640 | 579 | 142 | 24.5250 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3908 | 99.0173 | 99.7672 | 36.4175 | 1713 | 17 | 1714 | 4 | 4 | 100.0000 | |
| jli-custom | SNP | * | map_l250_m2_e1 | homalt | 99.3906 | 99.0066 | 99.7775 | 85.5799 | 2691 | 27 | 2691 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3905 | 98.9595 | 99.8252 | 33.0994 | 1712 | 18 | 1713 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3904 | 99.2623 | 99.5188 | 66.4857 | 6190 | 46 | 6205 | 30 | 5 | 16.6667 | |
| gduggal-bwafb | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.3902 | 99.6942 | 99.0881 | 84.2433 | 326 | 1 | 326 | 3 | 1 | 33.3333 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.3902 | 99.6942 | 99.0881 | 83.4507 | 326 | 1 | 326 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.3902 | 99.6942 | 99.0881 | 83.8329 | 326 | 1 | 326 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.3902 | 99.6942 | 99.0881 | 83.5088 | 326 | 1 | 326 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | SNP | tv | map_l100_m0_e0 | * | 99.3900 | 99.2241 | 99.5564 | 68.9143 | 10998 | 86 | 10997 | 49 | 15 | 30.6122 | |
| gduggal-bwafb | SNP | * | map_l150_m1_e0 | homalt | 99.3896 | 98.9444 | 99.8389 | 72.9039 | 11154 | 119 | 11154 | 18 | 11 | 61.1111 | |
| egarrison-hhga | SNP | ti | map_l150_m2_e1 | * | 99.3895 | 98.9866 | 99.7957 | 75.2728 | 20513 | 210 | 20513 | 42 | 20 | 47.6190 | |
| astatham-gatk | SNP | ti | * | het | 99.3889 | 98.8086 | 99.9762 | 18.5890 | 1266618 | 15273 | 1266563 | 302 | 60 | 19.8675 | |
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3889 | 98.8731 | 99.9101 | 37.5970 | 6668 | 76 | 6668 | 6 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.3889 | 99.0959 | 99.6837 | 47.2135 | 2521 | 23 | 2521 | 8 | 0 | 0.0000 | |
| jlack-gatk | SNP | tv | map_l100_m1_e0 | homalt | 99.3888 | 98.9052 | 99.8772 | 60.2177 | 8944 | 99 | 8944 | 11 | 7 | 63.6364 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.3884 | 99.3884 | 99.3884 | 83.3672 | 325 | 2 | 325 | 2 | 1 | 50.0000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.3884 | 99.2047 | 99.5729 | 68.2811 | 1871 | 15 | 1865 | 8 | 7 | 87.5000 | |
| egarrison-hhga | SNP | ti | map_l150_m2_e0 | * | 99.3881 | 98.9811 | 99.7985 | 75.2011 | 20303 | 209 | 20303 | 41 | 20 | 48.7805 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3879 | 98.8406 | 99.9413 | 37.5183 | 3410 | 40 | 3407 | 2 | 1 | 50.0000 | |
| ltrigg-rtg2 | SNP | ti | HG002compoundhet | * | 99.3879 | 98.9873 | 99.7918 | 33.3089 | 17301 | 177 | 17255 | 36 | 13 | 36.1111 | |
| mlin-fermikit | SNP | * | func_cds | het | 99.3878 | 98.9159 | 99.8643 | 18.4193 | 11040 | 121 | 11040 | 15 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3876 | 99.6809 | 99.0961 | 47.6724 | 6248 | 20 | 6249 | 57 | 11 | 19.2982 | |
| hfeng-pmm3 | SNP | tv | map_l150_m2_e0 | * | 99.3876 | 99.3395 | 99.4357 | 75.5855 | 11280 | 75 | 11278 | 64 | 9 | 14.0625 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e1 | homalt | 99.3872 | 99.0901 | 99.6862 | 73.4415 | 7623 | 70 | 7623 | 24 | 23 | 95.8333 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3872 | 99.0063 | 99.7710 | 48.5556 | 11757 | 118 | 11762 | 27 | 17 | 62.9630 | |
| jli-custom | SNP | tv | segdup | het | 99.3872 | 99.6974 | 99.0789 | 90.9422 | 5271 | 16 | 5271 | 49 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3868 | 99.5904 | 99.1841 | 39.0236 | 1945 | 8 | 1945 | 16 | 16 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002complexvar | het | 99.3867 | 98.9004 | 99.8777 | 56.7573 | 17989 | 200 | 17970 | 22 | 13 | 59.0909 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l150_m2_e0 | * | 99.3865 | 98.7805 | 100.0000 | 92.0821 | 81 | 1 | 81 | 0 | 0 | ||