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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72951-73000 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.9555 | 98.7078 | 99.2044 | 76.2044 | 19326 | 253 | 19326 | 155 | 19 | 12.2581 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.9555 | 98.7078 | 99.2044 | 76.2044 | 19326 | 253 | 19326 | 155 | 19 | 12.2581 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.9557 | 99.5662 | 98.3527 | 76.9179 | 918 | 4 | 1015 | 17 | 6 | 35.2941 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m2_e1 | * | 98.9559 | 98.1449 | 99.7803 | 61.1285 | 16348 | 309 | 16353 | 36 | 5 | 13.8889 | |
| gduggal-bwafb | SNP | * | map_l250_m1_e0 | homalt | 98.9560 | 98.1324 | 99.7936 | 88.2570 | 2417 | 46 | 2417 | 5 | 5 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | segdup | * | 98.9561 | 98.7307 | 99.1826 | 95.3977 | 1089 | 14 | 1092 | 9 | 1 | 11.1111 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9561 | 99.6411 | 98.2804 | 53.4169 | 8330 | 30 | 8287 | 145 | 135 | 93.1034 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9561 | 99.6411 | 98.2804 | 53.4169 | 8330 | 30 | 8287 | 145 | 135 | 93.1034 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.9562 | 97.9339 | 100.0000 | 69.3299 | 237 | 5 | 238 | 0 | 0 | ||
| astatham-gatk | SNP | tv | map_l125_m0_e0 | homalt | 98.9564 | 98.1990 | 99.7257 | 68.9479 | 2181 | 40 | 2181 | 6 | 4 | 66.6667 | |
| ltrigg-rtg1 | INDEL | I1_5 | segdup | * | 98.9565 | 98.7724 | 99.1412 | 93.0766 | 1046 | 13 | 1039 | 9 | 3 | 33.3333 | |
| gduggal-bwaplat | SNP | ti | * | het | 98.9567 | 98.3966 | 99.5232 | 28.0886 | 1261337 | 20554 | 1261923 | 6046 | 762 | 12.6034 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.9572 | 97.9670 | 99.9676 | 71.7050 | 3084 | 64 | 3084 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | SNP | ti | map_l250_m1_e0 | * | 98.9581 | 99.3885 | 98.5313 | 90.1600 | 4551 | 28 | 4495 | 67 | 6 | 8.9552 | |
| ndellapenna-hhga | SNP | tv | map_l250_m0_e0 | homalt | 98.9583 | 98.4456 | 99.4764 | 91.6630 | 190 | 3 | 190 | 1 | 1 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_l250_m0_e0 | homalt | 98.9583 | 98.4456 | 99.4764 | 92.2735 | 190 | 3 | 190 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | map_l150_m2_e0 | homalt | 98.9583 | 98.7526 | 99.1649 | 89.9349 | 475 | 6 | 475 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9583 | 99.2753 | 98.6433 | 48.3478 | 9452 | 69 | 9452 | 130 | 127 | 97.6923 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9588 | 99.0919 | 98.8260 | 75.8275 | 45287 | 415 | 45287 | 538 | 41 | 7.6208 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9588 | 99.0919 | 98.8260 | 75.8275 | 45287 | 415 | 45287 | 538 | 41 | 7.6208 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.9589 | 98.6346 | 99.2853 | 46.9834 | 1806 | 25 | 1806 | 13 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D1_5 | * | het | 98.9590 | 98.4961 | 99.4263 | 56.5657 | 86257 | 1317 | 92550 | 534 | 170 | 31.8352 | |
| bgallagher-sentieon | SNP | tv | map_l150_m1_e0 | * | 98.9592 | 99.3402 | 98.5810 | 76.0604 | 10840 | 72 | 10838 | 156 | 25 | 16.0256 | |
| raldana-dualsentieon | INDEL | * | HG002complexvar | * | 98.9594 | 98.2323 | 99.6974 | 57.2556 | 75578 | 1360 | 75441 | 229 | 196 | 85.5895 | |
| gduggal-bwafb | SNP | ti | map_l250_m0_e0 | homalt | 98.9595 | 98.1651 | 99.7669 | 92.8560 | 428 | 8 | 428 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l150_m2_e0 | homalt | 98.9596 | 98.3471 | 99.5798 | 88.1000 | 238 | 4 | 237 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9598 | 98.5931 | 99.3293 | 80.6409 | 14366 | 205 | 14366 | 97 | 14 | 14.4330 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9598 | 98.5931 | 99.3293 | 80.6409 | 14366 | 205 | 14366 | 97 | 14 | 14.4330 | |
| ckim-vqsr | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.9599 | 98.7154 | 99.2056 | 68.9820 | 1998 | 26 | 1998 | 16 | 7 | 43.7500 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m2_e0 | het | 98.9599 | 98.3013 | 99.6273 | 57.1739 | 15509 | 268 | 15505 | 58 | 5 | 8.6207 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.9599 | 98.1796 | 99.7528 | 64.8872 | 809 | 15 | 807 | 2 | 1 | 50.0000 | |
| gduggal-snapfb | SNP | * | segdup | * | 98.9601 | 99.4941 | 98.4319 | 91.5712 | 27925 | 142 | 27933 | 445 | 34 | 7.6405 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e0 | homalt | 98.9605 | 98.3471 | 99.5816 | 88.5151 | 238 | 4 | 238 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | map_l150_m2_e0 | homalt | 98.9605 | 98.9605 | 98.9605 | 88.3873 | 476 | 5 | 476 | 5 | 3 | 60.0000 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.9606 | 99.8160 | 98.1198 | 64.2712 | 2170 | 4 | 2244 | 43 | 1 | 2.3256 | |
| ndellapenna-hhga | SNP | * | map_l250_m0_e0 | homalt | 98.9608 | 98.4102 | 99.5177 | 90.5327 | 619 | 10 | 619 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9613 | 99.3365 | 98.5889 | 49.3810 | 3144 | 21 | 3144 | 45 | 43 | 95.5556 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.9613 | 97.9439 | 100.0000 | 73.6658 | 524 | 11 | 528 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9616 | 98.9247 | 98.9986 | 84.3973 | 1380 | 15 | 1384 | 14 | 4 | 28.5714 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9618 | 99.7173 | 98.2178 | 72.3769 | 3527 | 10 | 3527 | 64 | 63 | 98.4375 | |
| ndellapenna-hhga | SNP | ti | map_l250_m0_e0 | homalt | 98.9619 | 98.3945 | 99.5360 | 89.9276 | 429 | 7 | 429 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | SNP | ti | map_l250_m0_e0 | homalt | 98.9619 | 98.3945 | 99.5360 | 89.7625 | 429 | 7 | 429 | 2 | 1 | 50.0000 | |
| ndellapenna-hhga | SNP | tv | map_l150_m2_e0 | * | 98.9623 | 98.2651 | 99.6695 | 73.4684 | 11158 | 197 | 11158 | 37 | 17 | 45.9459 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9624 | 98.4167 | 99.5141 | 71.6519 | 3481 | 56 | 3482 | 17 | 15 | 88.2353 | |
| bgallagher-sentieon | INDEL | * | map_l150_m2_e0 | homalt | 98.9627 | 99.1684 | 98.7578 | 89.3260 | 477 | 4 | 477 | 6 | 3 | 50.0000 | |
| egarrison-hhga | SNP | tv | map_l150_m0_e0 | * | 98.9629 | 98.2990 | 99.6357 | 78.3979 | 4103 | 71 | 4103 | 15 | 6 | 40.0000 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.9631 | 100.0000 | 97.9475 | 55.8853 | 858 | 0 | 859 | 18 | 12 | 66.6667 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9634 | 98.0991 | 99.8431 | 67.2451 | 30551 | 592 | 30551 | 48 | 17 | 35.4167 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9634 | 98.0991 | 99.8431 | 67.2451 | 30551 | 592 | 30551 | 48 | 17 | 35.4167 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.9637 | 99.4792 | 98.4536 | 42.7729 | 191 | 1 | 191 | 3 | 2 | 66.6667 | |