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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70401-70450 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | I1_5 | map_l150_m2_e0 | homalt | 98.4949 | 98.0100 | 98.9848 | 87.2244 | 197 | 4 | 195 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.4951 | 97.6558 | 99.3490 | 71.4213 | 4999 | 120 | 5036 | 33 | 7 | 21.2121 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.4953 | 98.4031 | 98.5877 | 57.4464 | 10907 | 177 | 10820 | 155 | 36 | 23.2258 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.4958 | 98.9669 | 98.0290 | 61.4708 | 958 | 10 | 945 | 19 | 19 | 100.0000 | |
| gduggal-bwavard | SNP | tv | map_l125_m0_e0 | homalt | 98.4958 | 97.2985 | 99.7229 | 71.9123 | 2161 | 60 | 2159 | 6 | 4 | 66.6667 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.4961 | 97.7763 | 99.2266 | 43.2593 | 20138 | 458 | 20142 | 157 | 149 | 94.9045 | |
| hfeng-pmm2 | INDEL | I6_15 | HG002complexvar | homalt | 98.4965 | 99.8353 | 97.1933 | 55.2244 | 1212 | 2 | 1212 | 35 | 35 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | map_siren | het | 98.4968 | 98.0479 | 98.9497 | 80.0579 | 4420 | 88 | 4428 | 47 | 5 | 10.6383 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4981 | 99.1184 | 97.8856 | 89.2499 | 787 | 7 | 787 | 17 | 11 | 64.7059 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4981 | 97.9421 | 99.0604 | 41.3577 | 24035 | 505 | 24037 | 228 | 220 | 96.4912 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l125_m2_e1 | * | 98.4982 | 97.9310 | 99.0719 | 86.7466 | 852 | 18 | 854 | 8 | 3 | 37.5000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4982 | 97.1110 | 99.9257 | 65.7528 | 9412 | 280 | 9412 | 7 | 6 | 85.7143 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e1 | het | 98.4983 | 97.2647 | 99.7636 | 66.7853 | 12659 | 356 | 12661 | 30 | 5 | 16.6667 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l100_m1_e0 | * | 98.4990 | 97.6190 | 99.3949 | 80.5561 | 1804 | 44 | 1807 | 11 | 1 | 9.0909 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.4990 | 98.1160 | 98.8851 | 46.7540 | 17915 | 344 | 17916 | 202 | 197 | 97.5248 | |
| ckim-dragen | SNP | * | segdup | * | 98.4991 | 99.8219 | 97.2109 | 92.1838 | 28017 | 50 | 28022 | 804 | 14 | 1.7413 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.4993 | 99.5404 | 97.4797 | 67.4289 | 1083 | 5 | 1083 | 28 | 22 | 78.5714 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l150_m2_e1 | * | 98.4994 | 98.6817 | 98.3178 | 90.3967 | 524 | 7 | 526 | 9 | 2 | 22.2222 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.4995 | 98.0432 | 98.9602 | 56.0148 | 27707 | 553 | 27695 | 291 | 283 | 97.2509 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.4998 | 99.8728 | 97.1640 | 70.8797 | 785 | 1 | 788 | 23 | 13 | 56.5217 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.5000 | 98.7469 | 98.2544 | 65.8723 | 394 | 5 | 394 | 7 | 5 | 71.4286 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l150_m2_e0 | homalt | 98.5000 | 98.0100 | 98.9950 | 87.6012 | 197 | 4 | 197 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5000 | 98.5000 | 98.5000 | 60.9375 | 197 | 3 | 197 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l150_m2_e0 | * | 98.5004 | 98.6262 | 98.3749 | 78.4095 | 11199 | 156 | 11199 | 185 | 38 | 20.5405 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.5007 | 97.2896 | 99.7423 | 37.1878 | 2728 | 76 | 2709 | 7 | 7 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | * | het | 98.5008 | 98.2708 | 98.7318 | 75.5383 | 2671 | 47 | 2647 | 34 | 10 | 29.4118 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.5010 | 97.5270 | 99.4946 | 34.2043 | 1262 | 32 | 1378 | 7 | 7 | 100.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5017 | 97.6560 | 99.3622 | 69.3191 | 28039 | 673 | 28040 | 180 | 4 | 2.2222 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5017 | 97.6560 | 99.3622 | 69.3191 | 28039 | 673 | 28040 | 180 | 4 | 2.2222 | |
| cchapple-custom | INDEL | D6_15 | * | het | 98.5018 | 98.2488 | 98.7561 | 48.6146 | 11389 | 203 | 20403 | 257 | 215 | 83.6576 | |
| dgrover-gatk | SNP | ti | map_l250_m1_e0 | * | 98.5022 | 98.3839 | 98.6208 | 89.9439 | 4505 | 74 | 4505 | 63 | 18 | 28.5714 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5026 | 97.4692 | 99.5582 | 62.4506 | 1502 | 39 | 4732 | 21 | 16 | 76.1905 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.5027 | 97.6813 | 99.3380 | 83.9369 | 2654 | 63 | 2551 | 17 | 1 | 5.8824 | |
| ltrigg-rtg1 | SNP | ti | HG002compoundhet | het | 98.5032 | 97.2856 | 99.7516 | 37.6347 | 9247 | 258 | 9237 | 23 | 5 | 21.7391 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5033 | 98.1180 | 98.8917 | 42.6441 | 9280 | 178 | 9280 | 104 | 101 | 97.1154 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5033 | 98.3901 | 98.6169 | 63.5523 | 2139 | 35 | 2139 | 30 | 19 | 63.3333 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | homalt | 98.5034 | 97.1370 | 99.9088 | 42.9389 | 3291 | 97 | 3286 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e1 | het | 98.5037 | 98.2501 | 98.7586 | 83.8596 | 2302 | 41 | 2307 | 29 | 5 | 17.2414 | |
| egarrison-hhga | INDEL | * | HG002complexvar | homalt | 98.5044 | 98.8604 | 98.1509 | 53.6323 | 26719 | 308 | 26700 | 503 | 354 | 70.3777 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.5046 | 97.6173 | 99.4081 | 39.4232 | 3892 | 95 | 3863 | 23 | 9 | 39.1304 | |
| hfeng-pmm3 | SNP | ti | map_l250_m0_e0 | * | 98.5053 | 98.6131 | 98.3977 | 92.9205 | 1351 | 19 | 1351 | 22 | 3 | 13.6364 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.5066 | 97.9670 | 99.0521 | 55.3862 | 16095 | 334 | 16093 | 154 | 147 | 95.4545 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l100_m2_e1 | homalt | 98.5075 | 98.5075 | 98.5075 | 84.8073 | 66 | 1 | 66 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l150_m0_e0 | homalt | 98.5075 | 98.5075 | 98.5075 | 87.2624 | 66 | 1 | 66 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_siren | het | 98.5075 | 98.0369 | 98.9826 | 78.7269 | 1648 | 33 | 1654 | 17 | 1 | 5.8824 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.5075 | 97.0588 | 100.0000 | 69.7248 | 66 | 2 | 66 | 0 | 0 | ||
| rpoplin-dv42 | SNP | tv | tech_badpromoters | het | 98.5075 | 100.0000 | 97.0588 | 39.2857 | 33 | 0 | 33 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l125_m1_e0 | homalt | 98.5075 | 97.0588 | 100.0000 | 89.4904 | 33 | 1 | 33 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l125_m1_e0 | homalt | 98.5075 | 97.0588 | 100.0000 | 86.4754 | 33 | 1 | 33 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.5075 | 97.3958 | 99.6448 | 66.8042 | 561 | 15 | 561 | 2 | 2 | 100.0000 | |