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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56801-56850 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 60.9324 | 77.3279 | 50.2732 | 71.4953 | 191 | 56 | 184 | 182 | 167 | 91.7582 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 72.7768 | 59.8071 | 92.9293 | 81.5471 | 186 | 125 | 184 | 14 | 12 | 85.7143 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 62.4672 | 47.4093 | 91.5423 | 97.1706 | 183 | 203 | 184 | 17 | 6 | 35.2941 | |
| gduggal-snapplat | INDEL | * | func_cds | homalt | 81.6523 | 71.6814 | 94.8454 | 31.4488 | 162 | 64 | 184 | 10 | 1 | 10.0000 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m0_e0 | het | 82.6482 | 81.6832 | 83.6364 | 95.8716 | 165 | 37 | 184 | 36 | 9 | 25.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 42.3952 | 29.7723 | 73.6000 | 86.9452 | 170 | 401 | 184 | 66 | 26 | 39.3939 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m1_e0 | het | 76.3802 | 83.3333 | 70.4981 | 82.9300 | 105 | 21 | 184 | 77 | 53 | 68.8312 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.1262 | 97.3404 | 98.9247 | 61.8070 | 183 | 5 | 184 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | map_l250_m1_e0 | het | 95.5844 | 96.8421 | 94.3590 | 95.3527 | 184 | 6 | 184 | 11 | 2 | 18.1818 | |
| hfeng-pmm2 | INDEL | * | map_l250_m1_e0 | het | 94.3590 | 96.8421 | 92.0000 | 96.2714 | 184 | 6 | 184 | 16 | 2 | 12.5000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l250_m2_e1 | * | 96.8421 | 99.4595 | 94.3590 | 95.5203 | 184 | 1 | 184 | 11 | 1 | 9.0909 | |
| ltrigg-rtg2 | INDEL | I6_15 | HG002compoundhet | het | 93.1013 | 92.3077 | 93.9086 | 73.1973 | 192 | 16 | 185 | 12 | 6 | 50.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 87.7721 | 78.5408 | 99.4624 | 73.8764 | 183 | 50 | 185 | 1 | 1 | 100.0000 | |
| qzeng-custom | SNP | ti | HG002complexvar | hetalt | 97.0149 | 94.2029 | 100.0000 | 39.1447 | 195 | 12 | 185 | 0 | 0 | ||
| ckim-gatk | INDEL | * | map_l250_m1_e0 | het | 88.9423 | 97.3684 | 81.8584 | 97.5127 | 185 | 5 | 185 | 41 | 2 | 4.8781 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4624 | 100.0000 | 98.9305 | 81.6667 | 155 | 0 | 185 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m1_e0 | het | 93.6988 | 94.4444 | 92.9648 | 84.0673 | 119 | 7 | 185 | 14 | 7 | 50.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.1039 | 93.9086 | 98.4043 | 52.4051 | 185 | 12 | 185 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 89.7762 | 88.0383 | 91.5842 | 74.4949 | 184 | 25 | 185 | 17 | 10 | 58.8235 | |
| anovak-vg | INDEL | C1_5 | * | * | 51.8752 | 80.0000 | 38.3817 | 91.6130 | 8 | 2 | 185 | 297 | 25 | 8.4175 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e0 | het | 92.1221 | 86.1905 | 98.9305 | 91.5385 | 181 | 29 | 185 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 85.9727 | 76.0163 | 98.9305 | 71.6667 | 187 | 59 | 185 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9648 | 89.8058 | 96.3542 | 88.3918 | 185 | 21 | 185 | 7 | 3 | 42.8571 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 80.7025 | 72.6989 | 90.6863 | 50.9615 | 466 | 175 | 185 | 19 | 19 | 100.0000 | |
| gduggal-bwavard | SNP | tv | map_l250_m0_e0 | homalt | 97.1129 | 95.8549 | 98.4043 | 93.6955 | 185 | 8 | 185 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | INDEL | * | map_l250_m1_e0 | het | 77.8894 | 96.8421 | 65.1408 | 96.6811 | 184 | 6 | 185 | 99 | 13 | 13.1313 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 27.1461 | 25.0340 | 29.6474 | 55.0756 | 184 | 551 | 185 | 439 | 435 | 99.0888 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 78.8136 | 65.7244 | 98.4127 | 78.7640 | 186 | 97 | 186 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l250_m2_e0 | * | 97.1095 | 97.3451 | 96.8750 | 94.8855 | 110 | 3 | 186 | 6 | 5 | 83.3333 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m0_e0 | het | 92.3077 | 96.8750 | 88.1517 | 92.7937 | 186 | 6 | 186 | 25 | 5 | 20.0000 | |
| gduggal-snapfb | INDEL | * | func_cds | het | 88.4234 | 85.0467 | 92.0792 | 43.5754 | 182 | 32 | 186 | 16 | 10 | 62.5000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 86.7133 | 96.8750 | 78.4810 | 46.7416 | 186 | 6 | 186 | 51 | 50 | 98.0392 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.9394 | 90.2913 | 97.8947 | 88.4988 | 186 | 20 | 186 | 4 | 2 | 50.0000 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 67.2694 | 51.8106 | 95.8763 | 44.7293 | 186 | 173 | 186 | 8 | 7 | 87.5000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.8750 | 100.0000 | 93.9394 | 65.3240 | 188 | 0 | 186 | 12 | 12 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m0_e0 | het | 97.8850 | 96.3542 | 99.4652 | 88.8955 | 185 | 7 | 186 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.8763 | 98.9362 | 93.0000 | 65.6947 | 186 | 2 | 186 | 14 | 13 | 92.8571 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.7681 | 90.2913 | 95.3846 | 88.0074 | 186 | 20 | 186 | 9 | 6 | 66.6667 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m1_e0 | het | 78.1102 | 88.8889 | 69.6629 | 87.0262 | 112 | 14 | 186 | 81 | 8 | 9.8765 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m0_e0 | homalt | 70.9924 | 72.0930 | 69.9248 | 75.4613 | 186 | 72 | 186 | 80 | 74 | 92.5000 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m2_e0 | * | 75.2386 | 70.0758 | 81.2227 | 82.7430 | 185 | 79 | 186 | 43 | 33 | 76.7442 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.4110 | 79.6748 | 79.1489 | 83.7595 | 196 | 50 | 186 | 49 | 46 | 93.8776 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 48.6822 | 32.4528 | 97.3822 | 61.4141 | 172 | 358 | 186 | 5 | 5 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m0_e0 | het | 95.8669 | 96.3542 | 95.3846 | 86.8243 | 185 | 7 | 186 | 9 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.0792 | 88.1517 | 96.3731 | 68.2566 | 186 | 25 | 186 | 7 | 7 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e1 | het | 92.1619 | 86.2559 | 98.9362 | 91.7616 | 182 | 29 | 186 | 2 | 0 | 0.0000 | |
| anovak-vg | INDEL | D1_5 | map_l150_m2_e0 | homalt | 85.5172 | 76.8595 | 96.3731 | 89.4304 | 186 | 56 | 186 | 7 | 6 | 85.7143 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 59.4656 | 87.5000 | 45.0363 | 57.4665 | 175 | 25 | 186 | 227 | 205 | 90.3084 | |
| gduggal-snapvard | INDEL | * | func_cds | homalt | 88.1855 | 79.2035 | 99.4652 | 24.2915 | 179 | 47 | 186 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m0_e0 | het | 98.1627 | 97.3958 | 98.9418 | 89.2062 | 187 | 5 | 187 | 2 | 0 | 0.0000 | |