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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
15901-15950 / 86044 show all | |||||||||||||||
| dgrover-gatk | SNP | * | map_l250_m2_e1 | * | 98.4461 | 98.3598 | 98.5325 | 90.3561 | 7856 | 131 | 7856 | 117 | 30 | 25.6410 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m2_e0 | het | 98.4460 | 98.2484 | 98.6443 | 83.0632 | 1234 | 22 | 1237 | 17 | 4 | 23.5294 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4458 | 98.9378 | 97.9586 | 49.7551 | 10618 | 114 | 10653 | 222 | 58 | 26.1261 | |
| ckim-dragen | INDEL | * | map_l125_m2_e1 | homalt | 98.4458 | 98.3204 | 98.5714 | 86.6180 | 761 | 13 | 759 | 11 | 6 | 54.5455 | |
| jli-custom | SNP | tv | map_l250_m0_e0 | homalt | 98.4456 | 98.4456 | 98.4456 | 91.2153 | 190 | 3 | 190 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.4456 | 96.9388 | 100.0000 | 33.7549 | 760 | 24 | 838 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.4453 | 97.6298 | 99.2746 | 55.5967 | 8197 | 199 | 8211 | 60 | 20 | 33.3333 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4449 | 99.3179 | 97.5871 | 73.2136 | 728 | 5 | 728 | 18 | 14 | 77.7778 | |
| astatham-gatk | INDEL | I16_PLUS | * | het | 98.4446 | 98.1604 | 98.7304 | 75.7581 | 2668 | 50 | 2644 | 34 | 11 | 32.3529 | |
| ckim-dragen | INDEL | * | func_cds | * | 98.4444 | 99.5506 | 97.3626 | 49.5006 | 443 | 2 | 443 | 12 | 1 | 8.3333 | |
| eyeh-varpipe | INDEL | D1_5 | func_cds | * | 98.4442 | 98.7421 | 98.1481 | 31.3559 | 157 | 2 | 159 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | SNP | ti | map_l250_m1_e0 | * | 98.4440 | 98.1000 | 98.7904 | 87.6879 | 4492 | 87 | 4492 | 55 | 36 | 65.4545 | |
| ltrigg-rtg1 | SNP | * | map_l150_m2_e0 | het | 98.4430 | 97.1937 | 99.7248 | 66.0349 | 19568 | 565 | 19569 | 54 | 9 | 16.6667 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.4424 | 97.6999 | 99.1963 | 85.4542 | 892 | 21 | 864 | 7 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | * | homalt | 98.4421 | 99.8893 | 97.0362 | 55.3606 | 6319 | 7 | 6319 | 193 | 190 | 98.4456 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.4421 | 98.3051 | 98.5795 | 46.6205 | 2436 | 42 | 2429 | 35 | 6 | 17.1429 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.4418 | 99.2664 | 97.6308 | 83.1720 | 9066 | 67 | 9066 | 220 | 10 | 4.5455 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.4418 | 99.2664 | 97.6308 | 83.1720 | 9066 | 67 | 9066 | 220 | 10 | 4.5455 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.4417 | 99.0385 | 97.8520 | 84.2540 | 206 | 2 | 410 | 9 | 8 | 88.8889 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.4409 | 97.7011 | 99.1919 | 60.2410 | 425 | 10 | 491 | 4 | 2 | 50.0000 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | het | 98.4409 | 96.9492 | 99.9794 | 17.3446 | 305163 | 9603 | 305113 | 63 | 21 | 33.3333 | |
| hfeng-pmm2 | SNP | ti | map_l250_m2_e0 | het | 98.4404 | 98.9244 | 97.9610 | 90.8174 | 3219 | 35 | 3219 | 67 | 7 | 10.4478 | |
| eyeh-varpipe | INDEL | D1_5 | HG002complexvar | het | 98.4401 | 97.6258 | 99.2681 | 46.7116 | 20272 | 493 | 18853 | 139 | 98 | 70.5036 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4400 | 98.0595 | 98.8235 | 76.0788 | 758 | 15 | 756 | 9 | 1 | 11.1111 | |
| jlack-gatk | SNP | tv | map_l150_m0_e0 | homalt | 98.4393 | 97.3645 | 99.5381 | 76.5184 | 1293 | 35 | 1293 | 6 | 4 | 66.6667 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e0 | homalt | 98.4391 | 98.3368 | 98.5417 | 89.3000 | 473 | 8 | 473 | 7 | 4 | 57.1429 | |
| ndellapenna-hhga | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.4390 | 98.0603 | 98.8206 | 66.9267 | 3185 | 63 | 3184 | 38 | 10 | 26.3158 | |
| dgrover-gatk | SNP | * | map_l250_m2_e0 | * | 98.4387 | 98.3513 | 98.5262 | 90.2982 | 7755 | 130 | 7755 | 116 | 30 | 25.8621 | |
| bgallagher-sentieon | SNP | ti | map_l150_m0_e0 | het | 98.4386 | 98.9798 | 97.9033 | 83.1082 | 5045 | 52 | 5043 | 108 | 15 | 13.8889 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.4378 | 97.3195 | 99.5821 | 32.8253 | 6644 | 183 | 6672 | 28 | 28 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4377 | 98.0757 | 98.8024 | 44.1799 | 3211 | 63 | 9405 | 114 | 104 | 91.2281 | |
| ndellapenna-hhga | SNP | ti | map_l125_m0_e0 | het | 98.4376 | 97.2165 | 99.6897 | 74.3678 | 8033 | 230 | 8033 | 25 | 12 | 48.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l100_m1_e0 | homalt | 98.4375 | 98.4375 | 98.4375 | 84.1975 | 63 | 1 | 63 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m2_e0 | homalt | 98.4375 | 96.9231 | 100.0000 | 87.4251 | 63 | 2 | 63 | 0 | 0 | ||
| ckim-dragen | INDEL | D1_5 | map_l100_m0_e0 | homalt | 98.4375 | 97.6744 | 99.2126 | 83.3878 | 252 | 6 | 252 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m2_e0 | homalt | 98.4375 | 96.9231 | 100.0000 | 87.0902 | 63 | 2 | 63 | 0 | 0 | ||
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.4375 | 99.2995 | 97.5904 | 67.0261 | 567 | 4 | 567 | 14 | 14 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m2_e0 | homalt | 98.4375 | 96.9231 | 100.0000 | 87.2211 | 63 | 2 | 63 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m2_e0 | homalt | 98.4375 | 96.9231 | 100.0000 | 84.0102 | 63 | 2 | 63 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l100_m2_e0 | homalt | 98.4375 | 96.9231 | 100.0000 | 84.0909 | 63 | 2 | 63 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4375 | 97.4227 | 99.4737 | 74.0968 | 378 | 10 | 378 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | D6_15 | map_l100_m2_e0 | homalt | 98.4375 | 96.9231 | 100.0000 | 85.1064 | 63 | 2 | 63 | 0 | 0 | ||
| ckim-vqsr | INDEL | D6_15 | map_l100_m2_e0 | homalt | 98.4375 | 96.9231 | 100.0000 | 87.4251 | 63 | 2 | 63 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.4371 | 99.0591 | 97.8229 | 71.0281 | 45272 | 430 | 45697 | 1017 | 32 | 3.1465 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.4371 | 99.0591 | 97.8229 | 71.0281 | 45272 | 430 | 45697 | 1017 | 32 | 3.1465 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.4369 | 98.7908 | 98.0854 | 58.8485 | 3840 | 47 | 3996 | 78 | 33 | 42.3077 | |
| cchapple-custom | SNP | tv | map_l125_m2_e1 | homalt | 98.4366 | 96.9213 | 100.0000 | 65.3352 | 5887 | 187 | 5884 | 0 | 0 | ||
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.4366 | 98.2863 | 98.5874 | 60.3465 | 15772 | 275 | 15773 | 226 | 212 | 93.8053 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m2_e1 | het | 98.4365 | 99.1325 | 97.7502 | 84.2651 | 1257 | 11 | 1260 | 29 | 2 | 6.8966 | |
| gduggal-bwafb | SNP | * | map_l125_m1_e0 | het | 98.4352 | 98.7039 | 98.1679 | 74.4388 | 28024 | 368 | 28024 | 523 | 121 | 23.1358 | |