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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17851-17900 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | I1_5 | map_siren | * | 98.0317 | 96.9052 | 99.1848 | 83.6671 | 2912 | 93 | 2920 | 24 | 8 | 33.3333 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0316 | 97.6012 | 98.4657 | 62.5780 | 13427 | 330 | 13413 | 209 | 47 | 22.4880 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0316 | 97.6012 | 98.4657 | 62.5780 | 13427 | 330 | 13413 | 209 | 47 | 22.4880 | |
| ltrigg-rtg2 | INDEL | * | map_siren | het | 98.0316 | 97.4490 | 98.6212 | 76.8583 | 4393 | 115 | 4363 | 61 | 2 | 3.2787 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.0315 | 98.4878 | 97.5794 | 54.7750 | 6578 | 101 | 6571 | 163 | 149 | 91.4110 | |
| gduggal-snapvard | SNP | tv | map_l125_m2_e1 | homalt | 98.0309 | 96.3286 | 99.7943 | 68.8883 | 5851 | 223 | 5823 | 12 | 9 | 75.0000 | |
| asubramanian-gatk | SNP | * | HG002compoundhet | homalt | 98.0307 | 96.9672 | 99.1179 | 35.4971 | 10455 | 327 | 10450 | 93 | 5 | 5.3763 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 98.0306 | 96.1373 | 100.0000 | 76.6393 | 224 | 9 | 228 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.0306 | 96.7239 | 99.3730 | 52.6355 | 620 | 21 | 634 | 4 | 4 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.0305 | 96.8370 | 99.2537 | 71.0999 | 398 | 13 | 399 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0302 | 97.5303 | 98.5353 | 67.8515 | 63737 | 1614 | 63506 | 944 | 836 | 88.5593 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0302 | 97.5303 | 98.5353 | 67.8515 | 63737 | 1614 | 63506 | 944 | 836 | 88.5593 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0301 | 97.2414 | 98.8318 | 65.5949 | 423 | 12 | 423 | 5 | 3 | 60.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0299 | 98.4252 | 97.6378 | 70.6019 | 125 | 2 | 124 | 3 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0298 | 97.8096 | 98.2511 | 71.9586 | 3483 | 78 | 3483 | 62 | 54 | 87.0968 | |
| astatham-gatk | INDEL | I1_5 | HG002complexvar | hetalt | 98.0296 | 96.3499 | 99.7688 | 70.6232 | 1663 | 63 | 1726 | 4 | 4 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0294 | 99.2360 | 96.8517 | 72.5744 | 1169 | 9 | 1169 | 38 | 38 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0292 | 97.0795 | 98.9977 | 67.6517 | 3457 | 104 | 3457 | 35 | 30 | 85.7143 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0288 | 97.3348 | 98.7327 | 54.0492 | 21657 | 593 | 21658 | 278 | 267 | 96.0432 | |
| ckim-vqsr | INDEL | D6_15 | HG002complexvar | * | 98.0282 | 97.5292 | 98.5322 | 58.5722 | 5171 | 131 | 5169 | 77 | 70 | 90.9091 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.0282 | 97.7528 | 98.3051 | 80.7818 | 174 | 4 | 174 | 3 | 2 | 66.6667 | |
| ndellapenna-hhga | SNP | * | HG002compoundhet | het | 98.0271 | 96.5510 | 99.5491 | 42.9549 | 13689 | 489 | 13687 | 62 | 36 | 58.0645 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.0270 | 99.5781 | 96.5235 | 48.1882 | 2360 | 10 | 2360 | 85 | 84 | 98.8235 | |
| hfeng-pmm1 | INDEL | * | map_l125_m2_e1 | * | 98.0268 | 97.0787 | 98.9936 | 86.3673 | 2160 | 65 | 2164 | 22 | 4 | 18.1818 | |
| jli-custom | INDEL | I16_PLUS | * | homalt | 98.0267 | 98.6547 | 97.4067 | 67.1719 | 1540 | 21 | 1540 | 41 | 36 | 87.8049 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | het | 98.0266 | 98.0590 | 97.9943 | 89.7744 | 1364 | 27 | 1368 | 28 | 4 | 14.2857 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0265 | 98.4792 | 97.5780 | 71.1859 | 17548 | 271 | 17163 | 426 | 391 | 91.7840 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0263 | 96.6909 | 99.3990 | 68.1693 | 15545 | 532 | 15546 | 94 | 71 | 75.5319 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0263 | 96.6909 | 99.3990 | 68.1693 | 15545 | 532 | 15546 | 94 | 71 | 75.5319 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002complexvar | hetalt | 98.0250 | 96.2341 | 99.8839 | 70.2777 | 1661 | 65 | 1721 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002complexvar | hetalt | 98.0250 | 96.2341 | 99.8839 | 71.1509 | 1661 | 65 | 1720 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.0250 | 97.6820 | 98.3704 | 46.6267 | 4509 | 107 | 4467 | 74 | 19 | 25.6757 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.0250 | 99.3414 | 96.7430 | 63.3526 | 2715 | 18 | 2703 | 91 | 87 | 95.6044 | |
| hfeng-pmm1 | INDEL | * | map_l125_m2_e0 | * | 98.0239 | 97.0856 | 98.9805 | 86.2460 | 2132 | 64 | 2136 | 22 | 4 | 18.1818 | |
| mlin-fermikit | SNP | * | segdup | * | 98.0230 | 97.4311 | 98.6220 | 85.8156 | 27346 | 721 | 27340 | 382 | 136 | 35.6021 | |
| rpoplin-dv42 | INDEL | * | map_l125_m1_e0 | * | 98.0229 | 97.5795 | 98.4704 | 98.6389 | 2056 | 51 | 2060 | 32 | 13 | 40.6250 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0229 | 97.8447 | 98.2019 | 70.5216 | 2406 | 53 | 2403 | 44 | 6 | 13.6364 | |
| gduggal-snapfb | SNP | tv | segdup | het | 98.0225 | 99.3191 | 96.7593 | 93.1540 | 5251 | 36 | 5255 | 176 | 3 | 1.7046 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.0224 | 96.8202 | 99.2547 | 76.2357 | 1492 | 49 | 1465 | 11 | 4 | 36.3636 | |
| raldana-dualsentieon | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.0221 | 96.4380 | 99.6592 | 65.6762 | 1462 | 54 | 1462 | 5 | 2 | 40.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0218 | 97.3951 | 98.6566 | 81.2038 | 4038 | 108 | 4039 | 55 | 32 | 58.1818 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0218 | 96.6030 | 99.4830 | 58.8566 | 9754 | 343 | 9622 | 50 | 26 | 52.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m1_e0 | het | 98.0207 | 98.2630 | 97.7796 | 82.5011 | 1188 | 21 | 1189 | 27 | 7 | 25.9259 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.0194 | 98.8917 | 97.1624 | 67.0369 | 14455 | 162 | 14073 | 411 | 388 | 94.4039 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.0188 | 98.3264 | 97.7131 | 72.8249 | 470 | 8 | 470 | 11 | 9 | 81.8182 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.0184 | 98.3990 | 97.6407 | 68.5083 | 3196 | 52 | 3228 | 78 | 3 | 3.8462 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0184 | 98.5852 | 97.4582 | 45.8333 | 1742 | 25 | 1457 | 38 | 11 | 28.9474 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.0173 | 97.5541 | 98.4848 | 77.3439 | 1037 | 26 | 1040 | 16 | 9 | 56.2500 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0168 | 97.1706 | 98.8778 | 83.5902 | 2301 | 67 | 2379 | 27 | 22 | 81.4815 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m0_e0 | het | 98.0166 | 97.9695 | 98.0636 | 83.8904 | 579 | 12 | 709 | 14 | 4 | 28.5714 | |