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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11851-11900 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1425 | 97.1232 | 97.1619 | 69.9250 | 3950 | 117 | 3937 | 115 | 98 | 85.2174 | |
| 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 | |
| cchapple-custom | SNP | tv | map_l150_m2_e0 | homalt | 98.3317 | 96.7181 | 100.0000 | 69.7502 | 3949 | 134 | 3947 | 0 | 0 | ||
| ghariani-varprowl | SNP | * | map_l150_m0_e0 | homalt | 98.0874 | 96.5762 | 99.6467 | 77.5747 | 3949 | 140 | 3949 | 14 | 6 | 42.8571 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1652 | 97.0740 | 97.2565 | 69.9160 | 3948 | 119 | 3935 | 111 | 98 | 88.2883 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1645 | 97.0494 | 97.2799 | 70.1462 | 3947 | 120 | 3934 | 110 | 98 | 89.0909 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1046 | 97.0494 | 97.1598 | 70.1203 | 3947 | 120 | 3934 | 115 | 99 | 86.0870 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4451 | 98.8964 | 100.0000 | 34.3864 | 3943 | 44 | 3946 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | HG002compoundhet | het | 90.4926 | 96.2872 | 85.3557 | 79.1653 | 3942 | 152 | 3707 | 636 | 459 | 72.1698 | |
| gduggal-snapfb | SNP | tv | map_l150_m2_e1 | homalt | 97.2966 | 95.3314 | 99.3444 | 82.3553 | 3941 | 193 | 3940 | 26 | 6 | 23.0769 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.3899 | 96.9496 | 99.8736 | 43.2587 | 3941 | 124 | 3951 | 5 | 2 | 40.0000 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.0824 | 98.8212 | 99.3451 | 39.8485 | 3940 | 47 | 3944 | 26 | 15 | 57.6923 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.7559 | 98.8212 | 96.7133 | 52.5820 | 3940 | 47 | 3943 | 134 | 24 | 17.9104 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 87.3183 | 98.1551 | 78.6365 | 59.0389 | 3937 | 74 | 3968 | 1078 | 33 | 3.0612 | |
| ltrigg-rtg1 | SNP | tv | map_l150_m1_e0 | homalt | 99.8478 | 99.7466 | 99.9492 | 70.2200 | 3936 | 10 | 3937 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 62.0445 | 67.3110 | 57.5423 | 47.2192 | 3935 | 1911 | 5947 | 4388 | 3469 | 79.0565 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 62.0445 | 67.3110 | 57.5423 | 47.2192 | 3935 | 1911 | 5947 | 4388 | 3469 | 79.0565 | |
| hfeng-pmm2 | SNP | tv | map_l150_m1_e0 | homalt | 99.7086 | 99.7212 | 99.6960 | 71.9235 | 3935 | 11 | 3935 | 12 | 4 | 33.3333 | |
| hfeng-pmm1 | SNP | tv | map_l150_m1_e0 | homalt | 99.7086 | 99.7212 | 99.6960 | 71.8212 | 3935 | 11 | 3935 | 12 | 4 | 33.3333 | |
| eyeh-varpipe | SNP | tv | map_l150_m1_e0 | homalt | 99.7710 | 99.7212 | 99.8208 | 74.4574 | 3935 | 11 | 3900 | 7 | 3 | 42.8571 | |
| gduggal-bwavard | INDEL | D6_15 | HG002complexvar | * | 76.1590 | 74.2173 | 78.2051 | 56.8522 | 3935 | 1367 | 3782 | 1054 | 954 | 90.5123 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.7603 | 96.7298 | 96.7909 | 69.6486 | 3934 | 133 | 3921 | 130 | 111 | 85.3846 | |
| asubramanian-gatk | INDEL | * | map_siren | het | 91.9143 | 87.2227 | 97.1393 | 86.6717 | 3932 | 576 | 3939 | 116 | 14 | 12.0690 | |
| gduggal-bwaplat | SNP | tv | HG002compoundhet | het | 81.9141 | 84.1429 | 79.8002 | 62.7770 | 3932 | 741 | 3994 | 1011 | 84 | 8.3086 | |
| hfeng-pmm3 | SNP | tv | map_l150_m1_e0 | homalt | 99.6705 | 99.6452 | 99.6957 | 71.7215 | 3932 | 14 | 3932 | 12 | 4 | 33.3333 | |
| ltrigg-rtg2 | SNP | tv | map_l150_m1_e0 | homalt | 99.7842 | 99.6199 | 99.9492 | 67.6001 | 3931 | 15 | 3932 | 2 | 1 | 50.0000 | |
| egarrison-hhga | SNP | tv | map_l150_m1_e0 | homalt | 99.7589 | 99.5945 | 99.9237 | 71.1191 | 3930 | 16 | 3930 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4310 | 96.6068 | 98.2694 | 64.7012 | 3929 | 138 | 3918 | 69 | 61 | 88.4058 | |
| raldana-dualsentieon | SNP | tv | map_l150_m1_e0 | homalt | 99.7335 | 99.5692 | 99.8983 | 67.6642 | 3929 | 17 | 3929 | 4 | 2 | 50.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 81.8219 | 73.9368 | 91.5896 | 61.6810 | 3929 | 1385 | 2973 | 273 | 264 | 96.7033 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5174 | 99.9237 | 99.1144 | 60.1090 | 3928 | 3 | 3917 | 35 | 2 | 5.7143 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 91.2250 | 84.5061 | 99.1045 | 23.0475 | 3927 | 720 | 3984 | 36 | 30 | 83.3333 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.8728 | 99.8982 | 99.8474 | 55.2916 | 3927 | 4 | 3927 | 6 | 1 | 16.6667 | |
| ndellapenna-hhga | SNP | tv | map_l150_m1_e0 | homalt | 99.6826 | 99.4932 | 99.8728 | 70.1019 | 3926 | 20 | 3926 | 5 | 4 | 80.0000 | |
| mlin-fermikit | SNP | tv | HG002compoundhet | het | 90.8488 | 84.0146 | 98.8934 | 54.3251 | 3926 | 747 | 3932 | 44 | 8 | 18.1818 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6319 | 99.8474 | 99.4174 | 58.2620 | 3925 | 6 | 3925 | 23 | 2 | 8.6957 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.8231 | 99.8474 | 99.7988 | 56.7435 | 3925 | 6 | 3969 | 8 | 2 | 25.0000 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.2666 | 99.8474 | 98.6925 | 59.1977 | 3925 | 6 | 3925 | 52 | 1 | 1.9231 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 95.3296 | 99.8474 | 91.2029 | 66.5610 | 3925 | 6 | 3753 | 362 | 12 | 3.3149 | |
| jli-custom | SNP | tv | map_l150_m1_e0 | homalt | 99.6698 | 99.4425 | 99.8982 | 67.6388 | 3924 | 22 | 3924 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6445 | 99.8219 | 99.4677 | 58.2805 | 3924 | 7 | 3924 | 21 | 2 | 9.5238 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5813 | 99.8219 | 99.3418 | 57.3342 | 3924 | 7 | 3924 | 26 | 1 | 3.8462 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6192 | 99.8219 | 99.4173 | 56.4253 | 3924 | 7 | 3924 | 23 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | tv | map_l150_m1_e0 | homalt | 99.6318 | 99.4425 | 99.8219 | 68.7396 | 3924 | 22 | 3924 | 7 | 5 | 71.4286 | |
| ckim-dragen | SNP | tv | map_l150_m1_e0 | homalt | 99.5559 | 99.4171 | 99.6950 | 66.7792 | 3923 | 23 | 3923 | 12 | 10 | 83.3333 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.8848 | 99.7965 | 97.9897 | 57.5988 | 3923 | 8 | 3997 | 82 | 1 | 1.2195 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7204 | 99.7965 | 99.6444 | 58.5971 | 3923 | 8 | 3923 | 14 | 1 | 7.1429 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 89.7688 | 92.5437 | 87.1556 | 81.5735 | 3922 | 316 | 4207 | 620 | 247 | 39.8387 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | * | 83.5998 | 73.9721 | 96.1087 | 66.0264 | 3922 | 1380 | 3927 | 159 | 104 | 65.4088 | |