PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53101-53150 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.4132 | 89.6552 | 97.5000 | 85.0187 | 78 | 9 | 78 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 89.1429 | 95.1220 | 83.8710 | 75.9067 | 78 | 4 | 78 | 15 | 15 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.1132 | 96.2963 | 100.0000 | 78.9189 | 78 | 3 | 78 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D6_15 | map_l125_m1_e0 | het | 94.7694 | 92.1875 | 97.5000 | 85.8156 | 59 | 5 | 78 | 2 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | func_cds | het | 95.7055 | 91.7647 | 100.0000 | 60.4061 | 78 | 7 | 78 | 0 | 0 | ||
| gduggal-bwavard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 52.0000 | 94.9170 | 0 | 0 | 78 | 72 | 8 | 11.1111 | |
| gduggal-bwavard | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 73.9336 | 100.0000 | 58.6466 | 95.6607 | 1 | 0 | 78 | 55 | 19 | 34.5455 | |
| gduggal-bwavard | INDEL | D1_5 | map_l150_m0_e0 | homalt | 96.3707 | 94.1176 | 98.7342 | 87.7519 | 80 | 5 | 78 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | INDEL | I6_15 | segdup | het | 78.4212 | 97.5904 | 65.5462 | 93.4795 | 81 | 2 | 78 | 41 | 40 | 97.5610 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 48.7099 | 38.0000 | 67.8261 | 54.3651 | 19 | 31 | 78 | 37 | 9 | 24.3243 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 60.9375 | 95.0788 | 0 | 0 | 78 | 50 | 35 | 70.0000 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 0.0000 | 0.0000 | 75.0000 | 95.7412 | 0 | 0 | 78 | 26 | 24 | 92.3077 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 68.5714 | 57.1429 | 85.7143 | 76.6667 | 76 | 57 | 78 | 13 | 9 | 69.2308 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m0_e0 | het | 84.7826 | 73.5849 | 100.0000 | 94.4681 | 78 | 28 | 78 | 0 | 0 | ||
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.8838 | 90.5263 | 97.5000 | 91.3886 | 86 | 9 | 78 | 2 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.1734 | 95.1220 | 85.7143 | 76.3021 | 78 | 4 | 78 | 13 | 13 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.1132 | 96.2963 | 100.0000 | 78.8043 | 78 | 3 | 78 | 0 | 0 | ||
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.4132 | 89.6552 | 97.5000 | 85.2399 | 78 | 9 | 78 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 89.1429 | 95.1220 | 83.8710 | 76.2755 | 78 | 4 | 78 | 15 | 15 | 100.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.1132 | 96.2963 | 100.0000 | 79.3103 | 78 | 3 | 78 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D1_5 | map_siren | hetalt | 96.2963 | 92.8571 | 100.0000 | 91.0138 | 78 | 6 | 78 | 0 | 0 | ||
| jlack-gatk | INDEL | D16_PLUS | map_l100_m2_e0 | * | 83.8710 | 86.6667 | 81.2500 | 95.3033 | 78 | 12 | 78 | 18 | 6 | 33.3333 | |
| hfeng-pmm1 | INDEL | D1_5 | map_siren | hetalt | 96.2963 | 92.8571 | 100.0000 | 91.0242 | 78 | 6 | 78 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.6364 | 95.1220 | 82.9787 | 75.1323 | 78 | 4 | 78 | 16 | 16 | 100.0000 | |
| jlack-gatk | SNP | * | map_siren | hetalt | 95.1220 | 96.2963 | 93.9759 | 79.4045 | 78 | 3 | 78 | 5 | 4 | 80.0000 | |
| jlack-gatk | SNP | tv | map_siren | hetalt | 95.1220 | 96.2963 | 93.9759 | 79.4045 | 78 | 3 | 78 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m0_e0 | homalt | 96.3707 | 94.1176 | 98.7342 | 89.6053 | 80 | 5 | 78 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m0_e0 | het | 93.5871 | 96.6667 | 90.6977 | 87.0091 | 58 | 2 | 78 | 8 | 3 | 37.5000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 89.6552 | 95.1220 | 84.7826 | 76.1039 | 78 | 4 | 78 | 14 | 14 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.1132 | 96.2963 | 100.0000 | 78.8043 | 78 | 3 | 78 | 0 | 0 | ||
| ciseli-custom | SNP | ti | tech_badpromoters | * | 86.2240 | 92.9412 | 80.4124 | 43.9306 | 79 | 6 | 78 | 19 | 1 | 5.2632 | |
| cchapple-custom | SNP | * | tech_badpromoters | homalt | 98.7421 | 98.7500 | 98.7342 | 44.3662 | 79 | 1 | 78 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | C1_5 | HG002complexvar | het | 38.3292 | 28.5714 | 58.2090 | 91.1900 | 2 | 5 | 78 | 56 | 4 | 7.1429 | |
| ckim-dragen | INDEL | D1_5 | map_siren | hetalt | 96.2963 | 92.8571 | 100.0000 | 89.8570 | 78 | 6 | 78 | 0 | 0 | ||
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.1356 | 95.1220 | 82.1053 | 75.7653 | 78 | 4 | 78 | 17 | 17 | 100.0000 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 48.8339 | 78.4314 | 35.4545 | 62.0035 | 80 | 22 | 78 | 142 | 137 | 96.4789 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m0_e0 | * | 51.7241 | 45.4545 | 60.0000 | 94.3966 | 80 | 96 | 78 | 52 | 39 | 75.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 47.1513 | 38.8350 | 60.0000 | 86.3874 | 80 | 126 | 78 | 52 | 50 | 96.1538 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 30.1911 | 18.8995 | 75.0000 | 65.9016 | 79 | 339 | 78 | 26 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | C1_5 | map_l100_m1_e0 | * | 0.0000 | 0.0000 | 49.0566 | 95.2861 | 0 | 0 | 78 | 81 | 9 | 11.1111 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m2_e0 | het | 66.1017 | 86.6667 | 53.4247 | 82.5150 | 26 | 4 | 78 | 68 | 53 | 77.9412 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m2_e1 | het | 66.1017 | 86.6667 | 53.4247 | 82.9240 | 26 | 4 | 78 | 68 | 53 | 77.9412 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 32.7542 | 70.2970 | 21.3514 | 93.1022 | 71 | 30 | 79 | 291 | 7 | 2.4055 | |
| gduggal-snapplat | INDEL | D6_15 | HG002compoundhet | het | 18.8426 | 19.6262 | 18.1193 | 66.4873 | 168 | 688 | 79 | 357 | 161 | 45.0980 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 50.5393 | 38.0488 | 75.2381 | 84.0909 | 78 | 127 | 79 | 26 | 25 | 96.1538 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 50.5393 | 38.0488 | 75.2381 | 84.0909 | 78 | 127 | 79 | 26 | 25 | 96.1538 | |
| ghariani-varprowl | SNP | * | tech_badpromoters | homalt | 98.1366 | 98.7500 | 97.5309 | 50.3067 | 79 | 1 | 79 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | ti | tech_badpromoters | * | 94.0476 | 92.9412 | 95.1807 | 61.3953 | 79 | 6 | 79 | 4 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | C1_5 | map_l100_m2_e0 | * | 0.0000 | 0.0000 | 48.7654 | 95.6463 | 0 | 0 | 79 | 83 | 9 | 10.8434 | |
| gduggal-snapfb | SNP | * | map_siren | hetalt | 96.3415 | 97.5309 | 95.1807 | 83.3333 | 79 | 2 | 79 | 4 | 0 | 0.0000 | |