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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12551-12600 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.5657 | 99.5192 | 97.6303 | 79.2527 | 207 | 1 | 206 | 5 | 4 | 80.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.0431 | 99.5192 | 98.5714 | 80.9264 | 207 | 1 | 207 | 3 | 2 | 66.6667 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.8067 | 99.5192 | 98.1043 | 79.8279 | 207 | 1 | 207 | 4 | 2 | 50.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.2806 | 99.5192 | 99.0431 | 78.4758 | 207 | 1 | 207 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.8067 | 99.5192 | 98.1043 | 80.8182 | 207 | 1 | 207 | 4 | 2 | 50.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6931 | 99.5186 | 99.8683 | 44.6416 | 2274 | 11 | 2275 | 3 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5462 | 99.5186 | 99.5739 | 79.3195 | 10749 | 52 | 10749 | 46 | 13 | 28.2609 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e1 | het | 99.2207 | 99.5181 | 98.9251 | 70.1134 | 46672 | 226 | 46661 | 507 | 63 | 12.4260 | |
| eyeh-varpipe | SNP | * | map_l150_m0_e0 | * | 97.7007 | 99.5180 | 95.9486 | 82.7662 | 11974 | 58 | 11652 | 492 | 15 | 3.0488 | |
| ckim-dragen | SNP | ti | map_siren | * | 99.0224 | 99.5177 | 98.5321 | 56.8522 | 99871 | 484 | 99880 | 1488 | 162 | 10.8871 | |
| egarrison-hhga | SNP | tv | HG002complexvar | het | 99.7360 | 99.5170 | 99.9560 | 21.2359 | 150003 | 728 | 150023 | 66 | 28 | 42.4242 | |
| ckim-dragen | SNP | ti | HG002complexvar | hetalt | 99.7579 | 99.5169 | 100.0000 | 39.2442 | 206 | 1 | 209 | 0 | 0 | ||
| ckim-gatk | INDEL | D1_5 | map_siren | het | 97.6349 | 99.5169 | 95.8228 | 85.4351 | 2266 | 11 | 2271 | 99 | 5 | 5.0505 | |
| eyeh-varpipe | SNP | ti | HG002complexvar | hetalt | 99.6433 | 99.5169 | 99.7701 | 22.0458 | 206 | 1 | 6075 | 14 | 13 | 92.8571 | |
| gduggal-bwafb | SNP | ti | HG002complexvar | hetalt | 99.5169 | 99.5169 | 99.5169 | 46.5116 | 206 | 1 | 206 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | SNP | ti | HG002complexvar | hetalt | 81.5842 | 99.5169 | 69.1275 | 54.1538 | 206 | 1 | 206 | 92 | 22 | 23.9130 | |
| ltrigg-rtg2 | SNP | ti | HG002complexvar | hetalt | 99.0419 | 99.5169 | 98.5714 | 37.5000 | 206 | 1 | 207 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | HG002complexvar | hetalt | 99.0419 | 99.5169 | 98.5714 | 36.3636 | 206 | 1 | 207 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | HG002complexvar | hetalt | 99.0385 | 99.5169 | 98.5646 | 34.6875 | 206 | 1 | 206 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | map_l150_m2_e1 | homalt | 99.6971 | 99.5162 | 99.8786 | 72.6929 | 4114 | 20 | 4114 | 5 | 4 | 80.0000 | |
| ckim-dragen | SNP | tv | map_l100_m2_e1 | homalt | 99.6770 | 99.5162 | 99.8382 | 60.2316 | 9257 | 45 | 9257 | 15 | 13 | 86.6667 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.5964 | 99.5161 | 99.6769 | 83.7873 | 617 | 3 | 617 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.5161 | 99.5161 | 99.5161 | 83.8500 | 617 | 3 | 617 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.5964 | 99.5161 | 99.6769 | 81.8369 | 617 | 3 | 617 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2393 | 99.5160 | 98.9641 | 59.7528 | 2673 | 13 | 2675 | 28 | 4 | 14.2857 | |
| ltrigg-rtg1 | SNP | * | map_l250_m2_e0 | homalt | 99.6459 | 99.5160 | 99.7760 | 87.2925 | 2673 | 13 | 2673 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7169 | 99.5157 | 99.9189 | 27.4838 | 2466 | 12 | 2465 | 2 | 0 | 0.0000 | |
| ckim-gatk | SNP | ti | * | * | 99.6817 | 99.5154 | 99.8485 | 21.6609 | 2075404 | 10107 | 2075345 | 3148 | 170 | 5.4003 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.6398 | 99.5152 | 90.2198 | 70.6072 | 821 | 4 | 821 | 89 | 86 | 96.6292 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.6398 | 99.5152 | 90.2198 | 70.6072 | 821 | 4 | 821 | 89 | 86 | 96.6292 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6427 | 99.5150 | 99.7707 | 54.4892 | 25236 | 123 | 25236 | 58 | 45 | 77.5862 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6035 | 99.5149 | 99.6923 | 54.6489 | 6154 | 30 | 6156 | 19 | 5 | 26.3158 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7185 | 99.5147 | 99.9231 | 80.8305 | 3896 | 19 | 3898 | 3 | 1 | 33.3333 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.9504 | 99.5147 | 90.7864 | 82.3867 | 3896 | 19 | 3902 | 396 | 320 | 80.8081 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3337 | 99.5146 | 99.1536 | 70.9926 | 820 | 4 | 820 | 7 | 1 | 14.2857 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0937 | 99.5146 | 98.6763 | 71.9257 | 820 | 4 | 820 | 11 | 1 | 9.0909 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3694 | 99.5142 | 99.2251 | 69.4063 | 3073 | 15 | 3073 | 24 | 12 | 50.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7216 | 99.5139 | 99.9303 | 67.9123 | 1433 | 7 | 1433 | 1 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 95.5502 | 99.5139 | 91.8902 | 78.2560 | 1433 | 7 | 1439 | 127 | 7 | 5.5118 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6177 | 99.5139 | 99.7216 | 67.7875 | 1433 | 7 | 1433 | 4 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | ti | map_l100_m0_e0 | het | 98.7795 | 99.5137 | 98.0561 | 74.4857 | 13915 | 68 | 13670 | 271 | 10 | 3.6900 | |
| ghariani-varprowl | SNP | tv | HG002complexvar | het | 98.7696 | 99.5137 | 98.0366 | 26.9661 | 149998 | 733 | 150145 | 3007 | 54 | 1.7958 | |
| gduggal-snapfb | SNP | ti | segdup | * | 99.1459 | 99.5137 | 98.7809 | 90.9477 | 19442 | 95 | 19446 | 240 | 23 | 9.5833 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4714 | 99.5136 | 99.4293 | 48.5634 | 27823 | 136 | 27875 | 160 | 12 | 7.5000 | |
| dgrover-gatk | SNP | tv | map_l100_m1_e0 | het | 99.2944 | 99.5135 | 99.0763 | 71.7035 | 15342 | 75 | 15338 | 143 | 24 | 16.7832 | |
| ckim-dragen | SNP | tv | map_l100_m1_e0 | homalt | 99.6733 | 99.5134 | 99.8336 | 57.5832 | 8999 | 44 | 8999 | 15 | 13 | 86.6667 | |
| eyeh-varpipe | SNP | ti | HG002compoundhet | homalt | 97.1981 | 99.5131 | 94.9883 | 44.4780 | 7358 | 36 | 2445 | 129 | 50 | 38.7597 | |
| jmaeng-gatk | INDEL | I1_5 | * | het | 99.3909 | 99.5129 | 99.2691 | 62.3588 | 78656 | 385 | 78640 | 579 | 142 | 24.5250 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e0 | het | 99.2145 | 99.5129 | 98.9179 | 70.0977 | 46173 | 226 | 46162 | 505 | 63 | 12.4752 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1996 | 99.5127 | 98.8884 | 74.7272 | 14500 | 71 | 14500 | 163 | 14 | 8.5890 | |