PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10451-10500 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | SNP | * | map_l125_m1_e0 | * | 74.4387 | 59.4965 | 99.4030 | 86.9422 | 26968 | 18359 | 26975 | 162 | 46 | 28.3951 | |
| gduggal-bwaplat | SNP | tv | map_siren | het | 91.2244 | 84.4245 | 99.2157 | 78.7828 | 24153 | 4456 | 24161 | 191 | 46 | 24.0838 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9228 | 99.1388 | 98.7077 | 45.0241 | 10015 | 87 | 9777 | 128 | 46 | 35.9375 | |
| eyeh-varpipe | SNP | tv | * | hetalt | 99.3621 | 99.8852 | 98.8445 | 45.4641 | 870 | 1 | 4106 | 48 | 46 | 95.8333 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.9324 | 95.1886 | 98.7412 | 44.6522 | 3482 | 176 | 4471 | 57 | 46 | 80.7018 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 91.1540 | 85.5407 | 97.5559 | 42.8699 | 4082 | 690 | 1876 | 47 | 46 | 97.8723 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.5168 | 98.8880 | 96.1831 | 70.9711 | 4802 | 54 | 4813 | 191 | 46 | 24.0838 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 82.6277 | 88.7597 | 77.2881 | 67.7243 | 229 | 29 | 228 | 67 | 46 | 68.6567 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 86.7610 | 94.3089 | 80.3318 | 79.6037 | 348 | 21 | 339 | 83 | 46 | 55.4217 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m0_e0 | homalt | 80.7666 | 81.7829 | 79.7753 | 83.9157 | 211 | 47 | 213 | 54 | 46 | 85.1852 | |
| ckim-dragen | INDEL | D1_5 | * | hetalt | 96.7193 | 94.0654 | 99.5273 | 61.7567 | 9637 | 608 | 9685 | 46 | 46 | 100.0000 | |
| ckim-dragen | SNP | ti | map_l100_m0_e0 | het | 97.6691 | 98.8629 | 96.5038 | 74.2830 | 13824 | 159 | 13829 | 501 | 46 | 9.1816 | |
| ckim-gatk | SNP | * | map_l100_m0_e0 | het | 86.1308 | 77.5383 | 96.8651 | 86.4108 | 16442 | 4763 | 16438 | 532 | 46 | 8.6466 | |
| ckim-isaac | INDEL | * | map_siren | * | 85.3582 | 75.5331 | 98.1215 | 78.4772 | 5597 | 1813 | 5589 | 107 | 46 | 42.9907 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2854 | 93.2411 | 99.5352 | 28.3262 | 9767 | 708 | 9850 | 46 | 46 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3059 | 99.0585 | 99.5546 | 59.8847 | 19675 | 187 | 19668 | 88 | 46 | 52.2727 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.7656 | 99.2084 | 88.8889 | 61.0497 | 376 | 3 | 376 | 47 | 46 | 97.8723 | |
| ciseli-custom | SNP | tv | map_l150_m1_e0 | het | 70.7269 | 64.3680 | 78.4799 | 84.0134 | 4471 | 2475 | 4471 | 1226 | 46 | 3.7520 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.9002 | 94.3962 | 99.5408 | 32.4909 | 9888 | 587 | 9971 | 46 | 46 | 100.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5673 | 97.5168 | 97.6178 | 66.9009 | 1885 | 48 | 1885 | 46 | 46 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.4858 | 93.1258 | 79.0043 | 75.2743 | 1436 | 106 | 1460 | 388 | 46 | 11.8557 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 63.0796 | 53.0658 | 77.7518 | 54.5745 | 476 | 421 | 332 | 95 | 46 | 48.4211 | |
| gduggal-snapplat | INDEL | I6_15 | * | het | 35.6936 | 25.4959 | 59.4871 | 60.4118 | 2558 | 7475 | 2505 | 1706 | 46 | 2.6964 | |
| ghariani-varprowl | INDEL | D6_15 | segdup | * | 69.3267 | 66.4921 | 72.4138 | 94.6180 | 127 | 64 | 126 | 48 | 46 | 95.8333 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 72.5275 | 68.1818 | 77.4648 | 69.3966 | 165 | 77 | 165 | 48 | 46 | 95.8333 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.7801 | 99.9228 | 97.6633 | 61.6275 | 3884 | 3 | 3887 | 93 | 46 | 49.4624 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 8.2305 | 5.2083 | 19.6078 | 88.3429 | 20 | 364 | 20 | 82 | 46 | 56.0976 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 12.5828 | 9.4527 | 18.8119 | 88.2558 | 19 | 182 | 19 | 82 | 46 | 56.0976 | |
| gduggal-snapvard | INDEL | D6_15 | HG002complexvar | homalt | 48.4509 | 33.4474 | 87.8641 | 42.5384 | 391 | 778 | 362 | 50 | 46 | 92.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.8029 | 0.4065 | 32.3699 | 65.8777 | 1 | 245 | 56 | 117 | 46 | 39.3162 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m0_e0 | * | 90.6741 | 94.8435 | 86.8559 | 87.7132 | 515 | 28 | 826 | 125 | 46 | 36.8000 | |
| gduggal-snapvard | SNP | ti | segdup | * | 98.3714 | 97.5175 | 99.2403 | 92.6560 | 19052 | 485 | 18941 | 145 | 46 | 31.7241 | |
| jlack-gatk | SNP | * | HG002complexvar | homalt | 99.9456 | 99.9096 | 99.9816 | 19.7398 | 288313 | 261 | 288284 | 53 | 46 | 86.7925 | |
| jlack-gatk | SNP | * | HG002compoundhet | * | 99.5417 | 99.7018 | 99.3822 | 42.1778 | 25745 | 77 | 25738 | 160 | 46 | 28.7500 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.1906 | 99.8023 | 98.5863 | 61.2684 | 55521 | 110 | 55510 | 796 | 46 | 5.7789 | |
| jlack-gatk | SNP | ti | map_l250_m2_e1 | * | 94.3407 | 98.0299 | 90.9191 | 92.8360 | 4976 | 100 | 4976 | 497 | 46 | 9.2555 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.4742 | 91.7900 | 99.4666 | 33.0334 | 9615 | 860 | 9697 | 52 | 46 | 88.4615 | |
| jlack-gatk | INDEL | D1_5 | * | hetalt | 95.0041 | 90.9322 | 99.4577 | 62.5612 | 9316 | 929 | 9354 | 51 | 46 | 90.1961 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.0253 | 90.5074 | 91.5493 | 68.7397 | 553 | 58 | 520 | 48 | 46 | 95.8333 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.1080 | 90.6710 | 91.5493 | 68.5493 | 554 | 57 | 520 | 48 | 46 | 95.8333 | |
| hfeng-pmm3 | SNP | ti | * | * | 99.9596 | 99.9417 | 99.9775 | 17.0194 | 2084295 | 1216 | 2084236 | 469 | 46 | 9.8081 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.5242 | 79.9191 | 89.6923 | 68.2772 | 593 | 149 | 583 | 67 | 46 | 68.6567 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2751 | 93.2220 | 99.5351 | 28.3303 | 9765 | 710 | 9848 | 46 | 46 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 84.0543 | 76.5381 | 93.2075 | 68.0466 | 734 | 225 | 741 | 54 | 46 | 85.1852 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 74.9981 | 60.3703 | 98.9815 | 39.2947 | 5609 | 3682 | 5248 | 54 | 46 | 85.1852 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 74.9981 | 60.3703 | 98.9815 | 39.2947 | 5609 | 3682 | 5248 | 54 | 46 | 85.1852 | |
| egarrison-hhga | SNP | tv | HG002complexvar | homalt | 99.8748 | 99.8086 | 99.9410 | 22.7459 | 94929 | 182 | 94938 | 56 | 46 | 82.1429 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 19.7111 | 11.0907 | 88.4956 | 74.5925 | 302 | 2421 | 400 | 52 | 46 | 88.4615 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 82.8070 | 95.5800 | 0 | 0 | 236 | 49 | 46 | 93.8776 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.7656 | 99.2084 | 88.8889 | 61.0497 | 376 | 3 | 376 | 47 | 46 | 97.8723 | |