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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67601-67650 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 32.5229 | 33.1367 | 31.9314 | 80.3989 | 1292 | 2607 | 1321 | 2816 | 99 | 3.5156 | |
| raldana-dualsentieon | INDEL | * | map_l125_m1_e0 | het | 97.3655 | 96.7790 | 97.9592 | 85.1598 | 1292 | 43 | 1296 | 27 | 3 | 11.1111 | |
| raldana-dualsentieon | INDEL | * | map_l150_m1_e0 | * | 97.2191 | 96.5620 | 97.8852 | 87.7089 | 1292 | 46 | 1296 | 28 | 4 | 14.2857 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.3469 | 96.9970 | 97.6994 | 59.7282 | 1292 | 40 | 1274 | 30 | 17 | 56.6667 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m1_e0 | * | 97.9147 | 96.4899 | 99.3822 | 78.5098 | 1292 | 47 | 1287 | 8 | 3 | 37.5000 | |
| hfeng-pmm1 | INDEL | * | map_l150_m1_e0 | * | 97.5871 | 96.6368 | 98.5562 | 87.8193 | 1293 | 45 | 1297 | 19 | 4 | 21.0526 | |
| rpoplin-dv42 | INDEL | * | map_l125_m1_e0 | het | 97.5874 | 96.8539 | 98.3321 | 86.1464 | 1293 | 42 | 1297 | 22 | 7 | 31.8182 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5894 | 97.8804 | 99.3088 | 61.8852 | 1293 | 28 | 1293 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | tv | map_l150_m0_e0 | homalt | 98.4393 | 97.3645 | 99.5381 | 76.5184 | 1293 | 35 | 1293 | 6 | 4 | 66.6667 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.0354 | 97.2932 | 96.7790 | 40.3219 | 1294 | 36 | 1292 | 43 | 35 | 81.3953 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.5154 | 97.1471 | 99.9228 | 63.2207 | 1294 | 38 | 1294 | 1 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | * | map_l125_m2_e1 | * | 69.4080 | 58.1573 | 86.0558 | 82.7274 | 1294 | 931 | 1296 | 210 | 161 | 76.6667 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 95.7165 | 94.9376 | 96.5082 | 74.6707 | 1294 | 69 | 1299 | 47 | 37 | 78.7234 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.0808 | 91.0689 | 99.4624 | 87.4506 | 1295 | 127 | 1295 | 7 | 3 | 42.8571 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.1875 | 95.5720 | 96.8111 | 79.9607 | 1295 | 60 | 1184 | 39 | 25 | 64.1026 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002complexvar | hetalt | 97.7751 | 95.7840 | 99.8506 | 73.3373 | 1295 | 57 | 1337 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | map_l250_m1_e0 | * | 30.3884 | 17.9313 | 99.5388 | 98.3683 | 1295 | 5927 | 1295 | 6 | 1 | 16.6667 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7043 | 98.0318 | 99.3860 | 61.8783 | 1295 | 26 | 1295 | 8 | 6 | 75.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 87.3498 | 78.5324 | 98.3974 | 44.5432 | 1295 | 354 | 1535 | 25 | 23 | 92.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m1_e0 | * | 97.7372 | 96.7140 | 98.7823 | 87.5119 | 1295 | 44 | 1298 | 16 | 4 | 25.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.4377 | 95.6458 | 99.2980 | 71.4667 | 1296 | 59 | 1273 | 9 | 4 | 44.4444 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 91.3897 | 97.0060 | 86.3881 | 76.4855 | 1296 | 40 | 1282 | 202 | 4 | 1.9802 | |
| cchapple-custom | SNP | ti | map_l250_m0_e0 | * | 95.9625 | 94.5985 | 97.3664 | 93.5930 | 1296 | 74 | 1294 | 35 | 13 | 37.1429 | |
| ciseli-custom | INDEL | * | segdup | het | 88.2244 | 88.4038 | 88.0457 | 95.3251 | 1296 | 170 | 1311 | 178 | 90 | 50.5618 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.0342 | 91.9149 | 98.3726 | 47.9336 | 1296 | 114 | 2962 | 49 | 35 | 71.4286 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.9131 | 95.6458 | 96.1820 | 79.8889 | 1296 | 59 | 1184 | 47 | 40 | 85.1064 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4015 | 97.3724 | 99.4527 | 70.1934 | 1297 | 35 | 1272 | 7 | 5 | 71.4286 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 92.0184 | 85.6671 | 99.3870 | 87.2881 | 1297 | 217 | 1297 | 8 | 3 | 37.5000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.1927 | 91.2096 | 99.5395 | 87.2592 | 1297 | 125 | 1297 | 6 | 4 | 66.6667 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m1_e0 | * | 97.1890 | 96.8633 | 97.5169 | 84.0762 | 1297 | 42 | 1296 | 33 | 8 | 24.2424 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.7079 | 97.3724 | 98.0457 | 60.9578 | 1297 | 35 | 2358 | 47 | 42 | 89.3617 | |
| jpowers-varprowl | INDEL | * | map_l125_m2_e0 | het | 92.9134 | 93.3142 | 92.5160 | 89.8956 | 1298 | 93 | 1298 | 105 | 74 | 70.4762 | |
| ndellapenna-hhga | INDEL | * | map_l125_m1_e0 | het | 97.3464 | 97.2285 | 97.4646 | 85.8260 | 1298 | 37 | 1307 | 34 | 9 | 26.4706 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.5532 | 95.7934 | 99.3789 | 69.8925 | 1298 | 57 | 1280 | 8 | 3 | 37.5000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 39.0386 | 32.6054 | 48.6345 | 60.4703 | 1299 | 2685 | 1300 | 1373 | 1338 | 97.4508 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m2_e0 | het | 96.2239 | 93.3861 | 99.2395 | 79.6156 | 1299 | 92 | 1305 | 10 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0091 | 98.3346 | 99.6930 | 62.0890 | 1299 | 22 | 1299 | 4 | 3 | 75.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.4850 | 97.5225 | 97.4474 | 70.6155 | 1299 | 33 | 1298 | 34 | 32 | 94.1176 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.8110 | 97.2305 | 94.4322 | 69.1595 | 1299 | 37 | 1289 | 76 | 8 | 10.5263 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m1_e0 | * | 97.2897 | 97.0127 | 97.5684 | 82.3852 | 1299 | 40 | 1284 | 32 | 10 | 31.2500 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l100_m1_e0 | * | 98.1120 | 97.0874 | 99.1584 | 77.8061 | 1300 | 39 | 1296 | 11 | 1 | 9.0909 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 32.2661 | 0.0000 | 0.0000 | 1300 | 2729 | 0 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D1_5 | HG002complexvar | hetalt | 97.9678 | 96.1538 | 99.8514 | 73.2565 | 1300 | 52 | 1344 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.1684 | 91.4205 | 99.2366 | 87.1594 | 1300 | 122 | 1300 | 10 | 3 | 30.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 77.1166 | 84.3061 | 71.0570 | 69.6058 | 1300 | 242 | 2131 | 868 | 620 | 71.4286 | |
| ndellapenna-hhga | INDEL | * | map_l150_m1_e0 | * | 97.6748 | 97.2347 | 98.1189 | 98.7054 | 1301 | 37 | 1304 | 25 | 9 | 36.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0861 | 98.4860 | 99.6935 | 62.3159 | 1301 | 20 | 1301 | 4 | 2 | 50.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.6415 | 96.0148 | 97.2764 | 66.3029 | 1301 | 54 | 2643 | 74 | 62 | 83.7838 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4016 | 92.2695 | 98.7539 | 72.0200 | 1301 | 109 | 1268 | 16 | 9 | 56.2500 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.5616 | 97.8195 | 87.8400 | 82.6726 | 1301 | 29 | 1098 | 152 | 125 | 82.2368 | |