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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26651-26700 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.6112 | 97.5894 | 99.6546 | 48.0405 | 7206 | 178 | 7214 | 25 | 15 | 60.0000 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.3834 | 97.8844 | 94.9277 | 48.0419 | 3979 | 86 | 4005 | 214 | 3 | 1.4019 | |
| anovak-vg | INDEL | D6_15 | * | * | 67.2100 | 61.4480 | 74.1646 | 48.0426 | 16033 | 10059 | 16202 | 5644 | 4329 | 76.7009 | |
| jlack-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 92.4487 | 89.3386 | 95.7831 | 48.0438 | 905 | 108 | 954 | 42 | 37 | 88.0952 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8250 | 99.7812 | 99.8688 | 48.0455 | 2280 | 5 | 2283 | 3 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | * | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 48.0519 | 80 | 0 | 80 | 0 | 0 | ||
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9111 | 99.8224 | 100.0000 | 48.0532 | 2248 | 4 | 2228 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 61.1050 | 49.8107 | 79.0230 | 48.0597 | 658 | 663 | 550 | 146 | 144 | 98.6301 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 85.6169 | 76.2817 | 97.5556 | 48.0669 | 1473 | 458 | 1756 | 44 | 37 | 84.0909 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 85.6169 | 76.2817 | 97.5556 | 48.0669 | 1473 | 458 | 1756 | 44 | 37 | 84.0909 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002complexvar | hetalt | 93.0557 | 89.4737 | 96.9365 | 48.0682 | 221 | 26 | 443 | 14 | 14 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 51.1017 | 43.2290 | 62.4805 | 48.0708 | 1063 | 1396 | 4398 | 2641 | 1993 | 75.4638 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 40.3639 | 25.5814 | 95.6173 | 48.0711 | 902 | 2624 | 1789 | 82 | 81 | 98.7805 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 40.3639 | 25.5814 | 95.6173 | 48.0711 | 902 | 2624 | 1789 | 82 | 81 | 98.7805 | |
| ghariani-varprowl | INDEL | * | HG002complexvar | homalt | 94.5817 | 93.8099 | 95.3663 | 48.0723 | 25354 | 1673 | 25253 | 1227 | 858 | 69.9267 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 78.3577 | 64.9123 | 98.8281 | 48.0730 | 259 | 140 | 253 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 93.0693 | 100.0000 | 87.0370 | 48.0769 | 47 | 0 | 47 | 7 | 7 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 76.1646 | 71.9865 | 80.8576 | 48.0795 | 16017 | 6233 | 16537 | 3915 | 3818 | 97.5223 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 82.9662 | 72.2705 | 97.3775 | 48.0824 | 10141 | 3891 | 10137 | 273 | 266 | 97.4359 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5246 | 99.3671 | 99.6825 | 48.0883 | 1570 | 10 | 1570 | 5 | 2 | 40.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7372 | 99.6061 | 99.8685 | 48.0892 | 2276 | 9 | 2279 | 3 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | HG002complexvar | hetalt | 93.7238 | 90.6883 | 96.9697 | 48.0899 | 224 | 23 | 448 | 14 | 14 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.5739 | 94.2717 | 94.8781 | 48.0950 | 3456 | 210 | 3464 | 187 | 150 | 80.2139 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 88.6180 | 82.8379 | 95.2651 | 48.0962 | 3205 | 664 | 2857 | 142 | 132 | 92.9577 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2789 | 94.7020 | 100.0000 | 48.0969 | 143 | 8 | 150 | 0 | 0 | ||
| ckim-isaac | INDEL | D6_15 | func_cds | * | 95.2381 | 93.0233 | 97.5610 | 48.1013 | 40 | 3 | 40 | 1 | 1 | 100.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6133 | 99.5263 | 99.7004 | 48.1016 | 3992 | 19 | 3993 | 12 | 3 | 25.0000 | |
| qzeng-custom | INDEL | I6_15 | * | * | 88.1501 | 86.9073 | 89.4289 | 48.1019 | 21573 | 3250 | 21640 | 2558 | 1057 | 41.3213 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 91.6225 | 98.8558 | 85.3755 | 48.1026 | 432 | 5 | 432 | 74 | 67 | 90.5405 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 88.0281 | 84.4498 | 91.9231 | 48.1038 | 353 | 65 | 239 | 21 | 21 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 28.2517 | 18.8679 | 56.2044 | 48.1061 | 20 | 86 | 77 | 60 | 60 | 100.0000 | |
| mlin-fermikit | SNP | ti | map_l100_m1_e0 | homalt | 75.0582 | 68.1626 | 83.5061 | 48.1080 | 12242 | 5718 | 12242 | 2418 | 2328 | 96.2779 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 90.1750 | 93.3148 | 87.2396 | 48.1081 | 335 | 24 | 335 | 49 | 47 | 95.9184 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 84.5812 | 78.6612 | 91.4649 | 48.1133 | 3067 | 832 | 10502 | 980 | 908 | 92.6531 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8250 | 99.7812 | 99.8688 | 48.1162 | 2280 | 5 | 2283 | 3 | 0 | 0.0000 | |
| mlin-fermikit | SNP | * | map_siren | het | 82.6394 | 70.9993 | 98.8447 | 48.1176 | 64603 | 26388 | 64595 | 755 | 18 | 2.3841 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 91.9203 | 85.7143 | 99.0950 | 48.1221 | 222 | 37 | 219 | 2 | 2 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.4720 | 98.3860 | 96.5748 | 48.1258 | 5974 | 98 | 8233 | 292 | 166 | 56.8493 | |
| ckim-isaac | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.1734 | 94.6284 | 99.8591 | 48.1340 | 19114 | 1085 | 19138 | 27 | 18 | 66.6667 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 42.9780 | 30.8511 | 70.8134 | 48.1390 | 145 | 325 | 592 | 244 | 168 | 68.8525 | |
| anovak-vg | INDEL | D16_PLUS | HG002complexvar | het | 65.7371 | 54.8329 | 82.0546 | 48.1457 | 607 | 500 | 631 | 138 | 95 | 68.8406 | |
| bgallagher-sentieon | SNP | ti | tech_badpromoters | het | 97.6744 | 95.4545 | 100.0000 | 48.1481 | 42 | 2 | 42 | 0 | 0 | ||
| astatham-gatk | SNP | ti | tech_badpromoters | het | 97.6744 | 95.4545 | 100.0000 | 48.1481 | 42 | 2 | 42 | 0 | 0 | ||
| asubramanian-gatk | INDEL | C16_PLUS | HG002compoundhet | * | 0.0000 | 0.0000 | 48.1481 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.4861 | 73.7415 | 86.2013 | 48.1481 | 542 | 193 | 531 | 85 | 81 | 95.2941 | |
| ltrigg-rtg2 | INDEL | D6_15 | func_cds | * | 98.8235 | 97.6744 | 100.0000 | 48.1481 | 42 | 1 | 42 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.2963 | 100.0000 | 92.8571 | 48.1481 | 13 | 0 | 13 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 48.1481 | 12 | 0 | 14 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | func_cds | het | 98.2456 | 96.5517 | 100.0000 | 48.1481 | 28 | 1 | 28 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 48.1481 | 12 | 0 | 14 | 0 | 0 | ||