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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
77401-77450 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | ti | map_l125_m2_e1 | homalt | 78.0137 | 63.9640 | 99.9727 | 74.8162 | 7329 | 4129 | 7329 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 69.4728 | 78.5200 | 62.2951 | 44.9448 | 3491 | 955 | 7334 | 4439 | 3996 | 90.0203 | |
| hfeng-pmm2 | INDEL | * | map_siren | * | 98.8132 | 98.7719 | 98.8544 | 81.7102 | 7319 | 91 | 7335 | 85 | 17 | 20.0000 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7892 | 99.7825 | 99.7959 | 36.4791 | 7339 | 16 | 7335 | 15 | 5 | 33.3333 | |
| ckim-gatk | INDEL | * | map_siren | * | 98.0865 | 98.7854 | 97.3974 | 85.2125 | 7320 | 90 | 7335 | 196 | 24 | 12.2449 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.7152 | 97.3162 | 96.1216 | 41.6514 | 7252 | 200 | 7336 | 296 | 141 | 47.6351 | |
| gduggal-bwaplat | SNP | ti | segdup | homalt | 98.8821 | 97.8281 | 99.9591 | 88.2036 | 7342 | 163 | 7338 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5118 | 99.8232 | 99.2024 | 37.2444 | 7342 | 13 | 7338 | 59 | 5 | 8.4746 | |
| hfeng-pmm3 | INDEL | * | map_siren | * | 99.0674 | 98.8394 | 99.2964 | 80.1151 | 7324 | 86 | 7339 | 52 | 13 | 25.0000 | |
| gduggal-bwavard | SNP | ti | map_l150_m2_e0 | homalt | 98.6236 | 97.4396 | 99.8368 | 73.2710 | 7421 | 195 | 7339 | 12 | 9 | 75.0000 | |
| gduggal-bwaplat | SNP | ti | map_l150_m1_e0 | het | 74.1845 | 59.2724 | 99.1222 | 91.2737 | 7332 | 5038 | 7340 | 65 | 21 | 32.3077 | |
| gduggal-snapfb | SNP | ti | HG002compoundhet | homalt | 96.6035 | 99.0803 | 94.2476 | 38.7254 | 7326 | 68 | 7340 | 448 | 160 | 35.7143 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 59.2248 | 49.9739 | 72.6787 | 68.3719 | 5739 | 5745 | 7342 | 2760 | 1993 | 72.2101 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4445 | 99.7009 | 99.1894 | 39.5064 | 7333 | 22 | 7342 | 60 | 10 | 16.6667 | |
| cchapple-custom | SNP | ti | map_l150_m2_e0 | homalt | 98.1821 | 96.4417 | 99.9864 | 68.7543 | 7345 | 271 | 7343 | 1 | 1 | 100.0000 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.8437 | 99.8912 | 99.7961 | 33.9853 | 7347 | 8 | 7343 | 15 | 3 | 20.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7622 | 99.8232 | 99.7013 | 32.7459 | 7342 | 13 | 7343 | 22 | 3 | 13.6364 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.9252 | 99.9048 | 99.9456 | 33.1240 | 7348 | 7 | 7343 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7691 | 99.9184 | 99.6202 | 33.3544 | 7349 | 6 | 7345 | 28 | 3 | 10.7143 | |
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7012 | 99.7281 | 99.6744 | 30.0294 | 7335 | 20 | 7346 | 24 | 4 | 16.6667 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7350 | 99.7281 | 99.7420 | 30.1101 | 7335 | 20 | 7346 | 19 | 4 | 21.0526 | |
| dgrover-gatk | INDEL | * | map_siren | * | 98.9418 | 98.9474 | 98.9362 | 83.4662 | 7332 | 78 | 7347 | 79 | 18 | 22.7848 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 95.5647 | 99.6601 | 91.7926 | 43.5950 | 7330 | 25 | 7348 | 657 | 15 | 2.2831 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.2746 | 89.5387 | 99.5395 | 27.7522 | 7318 | 855 | 7349 | 34 | 30 | 88.2353 | |
| eyeh-varpipe | SNP | ti | segdup | homalt | 99.9189 | 99.9600 | 99.8777 | 88.4551 | 7502 | 3 | 7351 | 9 | 9 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | map_siren | * | 98.9031 | 99.0553 | 98.7513 | 82.8003 | 7340 | 70 | 7355 | 93 | 21 | 22.5806 | |
| gduggal-snapvard | INDEL | * | map_siren | * | 85.9947 | 88.0027 | 84.0764 | 84.1625 | 6521 | 889 | 7355 | 1393 | 670 | 48.0976 | |
| mlin-fermikit | SNP | * | map_l125_m0_e0 | * | 52.1003 | 37.9727 | 82.9686 | 58.9613 | 7361 | 12024 | 7356 | 1510 | 1338 | 88.6093 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7896 | 99.8368 | 99.7424 | 34.4616 | 7343 | 12 | 7358 | 19 | 8 | 42.1053 | |
| egarrison-hhga | SNP | ti | HG002compoundhet | homalt | 99.3116 | 99.4861 | 99.1378 | 31.0451 | 7356 | 38 | 7359 | 64 | 54 | 84.3750 | |
| ndellapenna-hhga | SNP | ti | HG002compoundhet | homalt | 98.8916 | 99.5266 | 98.2646 | 31.2248 | 7359 | 35 | 7361 | 130 | 119 | 91.5385 | |
| anovak-vg | SNP | ti | segdup | homalt | 98.8024 | 98.6009 | 99.0047 | 87.1313 | 7400 | 105 | 7361 | 74 | 73 | 98.6486 | |
| gduggal-bwafb | SNP | ti | HG002compoundhet | homalt | 99.3188 | 99.5943 | 99.0449 | 33.6250 | 7364 | 30 | 7363 | 71 | 58 | 81.6901 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2862 | 98.9399 | 99.6350 | 37.4196 | 7373 | 79 | 7370 | 27 | 2 | 7.4074 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.4218 | 98.7654 | 96.1142 | 48.1999 | 7360 | 92 | 7371 | 298 | 81 | 27.1812 | |
| gduggal-snapvard | SNP | ti | map_l150_m0_e0 | * | 89.0696 | 94.6444 | 84.1150 | 85.4263 | 7440 | 421 | 7371 | 1392 | 107 | 7.6868 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4177 | 98.8728 | 97.9668 | 40.4008 | 7368 | 84 | 7372 | 153 | 3 | 1.9608 | |
| ckim-isaac | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 81.4636 | 75.3003 | 88.7258 | 57.0269 | 7585 | 2488 | 7374 | 937 | 772 | 82.3906 | |
| jlack-gatk | INDEL | D6_15 | HG002compoundhet | hetalt | 94.7748 | 90.4552 | 99.5278 | 24.3596 | 7373 | 778 | 7377 | 35 | 30 | 85.7143 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.9986 | 97.0872 | 98.9273 | 73.5231 | 6233 | 187 | 7378 | 80 | 61 | 76.2500 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.9986 | 97.0872 | 98.9273 | 73.5231 | 6233 | 187 | 7378 | 80 | 61 | 76.2500 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4812 | 99.0741 | 99.8917 | 37.3686 | 7383 | 69 | 7380 | 8 | 2 | 25.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4544 | 99.0741 | 99.8377 | 37.0787 | 7383 | 69 | 7380 | 12 | 3 | 25.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0674 | 99.0875 | 99.0472 | 37.3044 | 7384 | 68 | 7381 | 71 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | ti | HG002compoundhet | homalt | 99.7770 | 99.8377 | 99.7163 | 30.8389 | 7382 | 12 | 7382 | 21 | 20 | 95.2381 | |
| jpowers-varprowl | SNP | ti | HG002compoundhet | homalt | 92.3856 | 99.8107 | 85.9888 | 37.4563 | 7380 | 14 | 7383 | 1203 | 882 | 73.3167 | |
| jlack-gatk | SNP | ti | HG002compoundhet | homalt | 99.8918 | 99.8648 | 99.9188 | 30.3225 | 7384 | 10 | 7384 | 6 | 6 | 100.0000 | |
| astatham-gatk | SNP | ti | HG002compoundhet | homalt | 99.8918 | 99.8783 | 99.9053 | 30.4740 | 7385 | 9 | 7385 | 7 | 7 | 100.0000 | |
| ghariani-varprowl | SNP | ti | HG002compoundhet | homalt | 92.9457 | 99.8242 | 86.9540 | 37.0935 | 7381 | 13 | 7385 | 1108 | 880 | 79.4224 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3339 | 99.0472 | 99.6223 | 38.0132 | 7381 | 71 | 7385 | 28 | 18 | 64.2857 | |