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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18701-18750 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7236 | 99.5599 | 99.8877 | 53.8466 | 14705 | 65 | 15125 | 17 | 10 | 58.8235 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 87.9595 | 98.3397 | 79.5614 | 83.1943 | 3850 | 65 | 3846 | 988 | 223 | 22.5709 | |
| ckim-dragen | INDEL | * | map_l100_m1_e0 | het | 96.2275 | 97.0917 | 95.3785 | 87.2966 | 2170 | 65 | 2167 | 105 | 9 | 8.5714 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m2_e1 | homalt | 81.9169 | 82.5269 | 81.3158 | 86.8147 | 307 | 65 | 309 | 71 | 59 | 83.0986 | |
| ciseli-custom | INDEL | D6_15 | map_l100_m1_e0 | hetalt | 0.0000 | 4.4118 | 0.0000 | 0.0000 | 3 | 65 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 0.0000 | 4.4118 | 0.0000 | 0.0000 | 3 | 65 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | I6_15 | map_siren | homalt | 35.9820 | 27.7778 | 51.0638 | 81.4961 | 25 | 65 | 24 | 23 | 20 | 86.9565 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8871 | 99.2258 | 98.5507 | 63.9239 | 8331 | 65 | 8296 | 122 | 109 | 89.3443 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.8499 | 98.2717 | 97.4317 | 68.9817 | 3696 | 65 | 4173 | 110 | 107 | 97.2727 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.8499 | 98.2717 | 97.4317 | 68.9817 | 3696 | 65 | 4173 | 110 | 107 | 97.2727 | |
| anovak-vg | INDEL | * | func_cds | het | 74.7761 | 69.6262 | 80.7487 | 43.8438 | 149 | 65 | 151 | 36 | 19 | 52.7778 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 88.3047 | 90.1065 | 86.5734 | 76.6949 | 592 | 65 | 619 | 96 | 50 | 52.0833 | |
| anovak-vg | INDEL | I16_PLUS | map_siren | * | 33.6000 | 24.4186 | 53.8462 | 69.2913 | 21 | 65 | 21 | 18 | 16 | 88.8889 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e1 | het | 98.0666 | 98.7652 | 97.3778 | 90.6744 | 5199 | 65 | 5199 | 140 | 25 | 17.8571 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 16.3569 | 13.3333 | 21.1538 | 62.5899 | 10 | 65 | 11 | 41 | 40 | 97.5610 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m2_e0 | het | 97.1444 | 94.8248 | 99.5802 | 74.4091 | 1191 | 65 | 1186 | 5 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m2_e1 | het | 97.1325 | 94.8738 | 99.5012 | 74.5666 | 1203 | 65 | 1197 | 6 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.8484 | 99.0268 | 98.6706 | 57.0089 | 6614 | 65 | 6606 | 89 | 88 | 98.8764 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3937 | 99.6425 | 99.1462 | 42.0410 | 18118 | 65 | 18115 | 156 | 2 | 1.2821 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 47.6809 | 39.8148 | 59.4203 | 84.0278 | 43 | 65 | 41 | 28 | 28 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m1_e0 | * | 94.3862 | 92.1687 | 96.7130 | 85.8775 | 765 | 65 | 765 | 26 | 19 | 73.0769 | |
| jpowers-varprowl | SNP | ti | func_cds | * | 99.5285 | 99.5285 | 99.5285 | 26.5751 | 13722 | 65 | 13722 | 65 | 9 | 13.8462 | |
| jpowers-varprowl | SNP | tv | map_l125_m0_e0 | homalt | 98.2456 | 97.0734 | 99.4465 | 76.8128 | 2156 | 65 | 2156 | 12 | 5 | 41.6667 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_siren | het | 97.6073 | 96.1333 | 99.1272 | 75.0467 | 1616 | 65 | 1590 | 14 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | ti | segdup | het | 98.7337 | 99.4597 | 98.0182 | 87.1794 | 11965 | 65 | 11969 | 242 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | tv | map_l250_m0_e0 | het | 93.8017 | 88.6364 | 99.6063 | 81.4936 | 507 | 65 | 506 | 2 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | * | 97.4806 | 96.9555 | 98.0114 | 92.0139 | 2070 | 65 | 2070 | 42 | 27 | 64.2857 | |
| raldana-dualsentieon | SNP | tv | map_l150_m0_e0 | * | 98.6080 | 98.4427 | 98.7737 | 78.9854 | 4109 | 65 | 4108 | 51 | 2 | 3.9216 | |
| rpoplin-dv42 | INDEL | * | map_l100_m2_e1 | het | 97.6450 | 97.2258 | 98.0678 | 84.3523 | 2278 | 65 | 2284 | 45 | 20 | 44.4444 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.2878 | 94.3032 | 98.3577 | 77.3927 | 1076 | 65 | 1078 | 18 | 15 | 83.3333 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3707 | 95.9702 | 98.8127 | 71.1458 | 1548 | 65 | 1498 | 18 | 13 | 72.2222 | |
| gduggal-bwafb | SNP | tv | map_l250_m1_e0 | het | 96.5517 | 96.3626 | 96.7416 | 89.4306 | 1722 | 65 | 1722 | 58 | 11 | 18.9655 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 75.2713 | 61.0778 | 98.0583 | 75.8782 | 102 | 65 | 101 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | map_l100_m1_e0 | hetalt | 64.1304 | 47.5806 | 98.3333 | 95.4853 | 59 | 65 | 59 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | map_l100_m2_e0 | hetalt | 64.5161 | 48.0000 | 98.3607 | 95.7639 | 60 | 65 | 60 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 83.3333 | 71.7391 | 99.3976 | 70.7746 | 165 | 65 | 165 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 80.5008 | 99.2225 | 67.7227 | 54.9332 | 8295 | 65 | 8615 | 4106 | 4035 | 98.2708 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 80.5008 | 99.2225 | 67.7227 | 54.9332 | 8295 | 65 | 8615 | 4106 | 4035 | 98.2708 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.9493 | 87.1795 | 99.5370 | 80.2016 | 442 | 65 | 430 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.5197 | 96.9598 | 98.0861 | 47.0350 | 2073 | 65 | 2050 | 40 | 13 | 32.5000 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e1 | homalt | 96.5853 | 94.9258 | 98.3037 | 87.2974 | 1216 | 65 | 1217 | 21 | 13 | 61.9048 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.8240 | 87.8505 | 98.3945 | 74.4282 | 470 | 65 | 429 | 7 | 7 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | segdup | * | 68.8950 | 65.9686 | 72.0930 | 94.5707 | 126 | 65 | 124 | 48 | 48 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 88.0281 | 84.4498 | 91.9231 | 48.1038 | 353 | 65 | 239 | 21 | 21 | 100.0000 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0382 | 97.9352 | 92.3077 | 77.3745 | 3083 | 65 | 3096 | 258 | 64 | 24.8062 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 45.0000 | 29.3478 | 96.4286 | 81.4570 | 27 | 65 | 27 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | tv | func_cds | * | 99.2280 | 98.5129 | 99.9536 | 23.4678 | 4306 | 65 | 4306 | 2 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 71.7925 | 70.7207 | 72.8972 | 84.2415 | 157 | 65 | 156 | 58 | 51 | 87.9310 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 87.3112 | 81.6384 | 93.8312 | 58.9880 | 289 | 65 | 289 | 19 | 5 | 26.3158 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 75.6717 | 93.2362 | 63.6760 | 61.7128 | 896 | 65 | 1022 | 583 | 558 | 95.7118 | |