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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76101-76150 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | D1_5 | map_l150_m0_e0 | homalt | 99.4152 | 100.0000 | 98.8372 | 89.0724 | 85 | 0 | 85 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m0_e0 | homalt | 99.4152 | 100.0000 | 98.8372 | 90.7626 | 85 | 0 | 85 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e0 | homalt | 99.4152 | 99.7067 | 99.1254 | 85.0480 | 340 | 1 | 340 | 3 | 2 | 66.6667 | |
| cchapple-custom | SNP | ti | tech_badpromoters | * | 99.4152 | 100.0000 | 98.8372 | 43.4211 | 85 | 0 | 85 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l150_m0_e0 | homalt | 99.4152 | 100.0000 | 98.8372 | 90.4232 | 85 | 0 | 85 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l150_m0_e0 | homalt | 99.4152 | 100.0000 | 98.8372 | 90.2935 | 85 | 0 | 85 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l125_m2_e0 | homalt | 99.4152 | 99.7067 | 99.1254 | 85.4907 | 340 | 1 | 340 | 3 | 1 | 33.3333 | |
| gduggal-bwafb | SNP | ti | tech_badpromoters | * | 99.4152 | 100.0000 | 98.8372 | 52.4862 | 85 | 0 | 85 | 1 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | D1_5 | func_cds | het | 99.4152 | 100.0000 | 98.8372 | 38.5714 | 85 | 0 | 85 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m0_e0 | homalt | 99.4152 | 100.0000 | 98.8372 | 90.7626 | 85 | 0 | 85 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e0 | homalt | 99.4152 | 99.7067 | 99.1254 | 84.7216 | 340 | 1 | 340 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m0_e0 | homalt | 99.4152 | 100.0000 | 98.8372 | 90.7427 | 85 | 0 | 85 | 1 | 1 | 100.0000 | |
| mlin-fermikit | SNP | tv | func_cds | homalt | 99.4152 | 99.7653 | 99.0676 | 23.6994 | 1700 | 4 | 1700 | 16 | 14 | 87.5000 | |
| ndellapenna-hhga | INDEL | D1_5 | func_cds | het | 99.4152 | 100.0000 | 98.8372 | 37.6812 | 85 | 0 | 85 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.4158 | 99.1539 | 99.6791 | 63.8395 | 9610 | 82 | 9630 | 31 | 5 | 16.1290 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.4163 | 99.3280 | 99.5048 | 58.5822 | 3252 | 22 | 3215 | 16 | 13 | 81.2500 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4163 | 99.1347 | 99.6996 | 67.2044 | 2635 | 23 | 2655 | 8 | 4 | 50.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.4164 | 99.4681 | 99.3648 | 53.1463 | 1122 | 6 | 1095 | 7 | 2 | 28.5714 | |
| jli-custom | SNP | ti | segdup | het | 99.4165 | 99.8504 | 98.9864 | 89.3080 | 12012 | 18 | 12012 | 123 | 2 | 1.6260 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l125_m2_e1 | homalt | 99.4169 | 99.4169 | 99.4169 | 84.8965 | 341 | 2 | 341 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4171 | 99.1580 | 99.6775 | 58.2394 | 2473 | 21 | 2473 | 8 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | func_cds | het | 99.4171 | 99.5107 | 99.3236 | 42.1899 | 2644 | 13 | 2643 | 18 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | tv | map_l150_m2_e1 | homalt | 99.4171 | 99.0082 | 99.8293 | 75.3205 | 4093 | 41 | 4093 | 7 | 5 | 71.4286 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4172 | 99.3015 | 99.5333 | 49.8126 | 4265 | 30 | 4265 | 20 | 3 | 15.0000 | |
| hfeng-pmm1 | SNP | * | map_l100_m1_e0 | het | 99.4173 | 99.1159 | 99.7205 | 63.9471 | 44958 | 401 | 44947 | 126 | 32 | 25.3968 | |
| dgrover-gatk | SNP | ti | map_l100_m1_e0 | het | 99.4173 | 99.4423 | 99.3923 | 69.6868 | 29775 | 167 | 29768 | 182 | 38 | 20.8791 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.4175 | 99.2248 | 99.6109 | 81.1722 | 256 | 2 | 256 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.4175 | 99.2248 | 99.6109 | 65.3171 | 256 | 2 | 256 | 1 | 0 | 0.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.4177 | 99.1702 | 99.6664 | 74.8848 | 5378 | 45 | 5377 | 18 | 12 | 66.6667 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.4177 | 99.1702 | 99.6664 | 74.8848 | 5378 | 45 | 5377 | 18 | 12 | 66.6667 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.4177 | 98.8829 | 99.9582 | 72.7717 | 2390 | 27 | 2394 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m1_e0 | homalt | 99.4179 | 99.7664 | 99.0719 | 87.2031 | 854 | 2 | 854 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | map_l250_m1_e0 | homalt | 99.4179 | 99.7664 | 99.0719 | 87.2692 | 854 | 2 | 854 | 8 | 4 | 50.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4180 | 99.2798 | 99.5566 | 63.6361 | 11028 | 80 | 11002 | 49 | 18 | 36.7347 | |
| dgrover-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4181 | 99.5505 | 99.2861 | 75.9770 | 48054 | 217 | 47844 | 344 | 262 | 76.1628 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4182 | 99.4576 | 99.3789 | 47.3459 | 6234 | 34 | 6240 | 39 | 16 | 41.0256 | |
| ckim-isaac | SNP | * | func_cds | * | 99.4183 | 98.8760 | 99.9666 | 20.1352 | 17946 | 204 | 17946 | 6 | 2 | 33.3333 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4183 | 98.8433 | 100.0000 | 85.6313 | 940 | 11 | 940 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4183 | 98.8433 | 100.0000 | 86.3471 | 940 | 11 | 940 | 0 | 0 | ||
| ckim-isaac | SNP | ti | func_cds | homalt | 99.4184 | 98.8436 | 100.0000 | 17.1197 | 5214 | 61 | 5214 | 0 | 0 | ||
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e1 | homalt | 99.4186 | 99.7085 | 99.1304 | 84.9608 | 342 | 1 | 342 | 3 | 2 | 66.6667 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.4186 | 99.4186 | 99.4186 | 80.4989 | 171 | 1 | 171 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.4186 | 98.8439 | 100.0000 | 78.2581 | 342 | 4 | 342 | 0 | 0 | ||
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e1 | homalt | 99.4186 | 99.7085 | 99.1304 | 85.2375 | 342 | 1 | 342 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.4186 | 99.4186 | 99.4186 | 81.3651 | 171 | 1 | 171 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002complexvar | het | 99.4186 | 100.0000 | 98.8439 | 78.6420 | 4 | 0 | 171 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4189 | 98.9485 | 99.8938 | 85.6381 | 941 | 10 | 941 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4191 | 98.9769 | 99.8654 | 39.1534 | 6675 | 69 | 6675 | 9 | 3 | 33.3333 | |
| ckim-gatk | SNP | tv | func_cds | het | 99.4192 | 99.8871 | 98.9556 | 44.4352 | 2654 | 3 | 2653 | 28 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | * | segdup | het | 99.4196 | 99.4052 | 99.4339 | 89.3885 | 17214 | 103 | 17214 | 98 | 4 | 4.0816 | |