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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
40651-40700 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.0002 | 95.9052 | 96.0954 | 70.9880 | 445 | 19 | 443 | 18 | 14 | 77.7778 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.7395 | 87.1028 | 99.1561 | 70.9914 | 466 | 69 | 470 | 4 | 3 | 75.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 55.3614 | 47.3958 | 66.5455 | 70.9916 | 182 | 202 | 183 | 92 | 89 | 96.7391 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3337 | 99.5146 | 99.1536 | 70.9926 | 820 | 4 | 820 | 7 | 1 | 14.2857 | |
| hfeng-pmm3 | SNP | * | map_l125_m1_e0 | het | 99.4129 | 99.3132 | 99.5129 | 70.9946 | 28197 | 195 | 28191 | 138 | 13 | 9.4203 | |
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | homalt | 99.7953 | 99.8089 | 99.7817 | 70.9972 | 7313 | 14 | 7313 | 16 | 7 | 43.7500 | |
| astatham-gatk | SNP | * | map_l125_m1_e0 | hetalt | 98.3051 | 96.6667 | 100.0000 | 71.0000 | 29 | 1 | 29 | 0 | 0 | ||
| astatham-gatk | SNP | tv | map_l125_m1_e0 | hetalt | 98.3051 | 96.6667 | 100.0000 | 71.0000 | 29 | 1 | 29 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 53.0788 | 81.5710 | 39.3382 | 71.0021 | 540 | 122 | 642 | 990 | 87 | 8.7879 | |
| anovak-vg | SNP | * | map_l100_m2_e0 | * | 84.2603 | 88.9000 | 80.0809 | 71.0026 | 65754 | 8210 | 64960 | 16158 | 3566 | 22.0696 | |
| anovak-vg | SNP | * | map_l100_m2_e1 | * | 84.3316 | 88.9439 | 80.1741 | 71.0026 | 66474 | 8263 | 65661 | 16237 | 3582 | 22.0607 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 66.5163 | 53.3333 | 88.3562 | 71.0030 | 256 | 224 | 258 | 34 | 20 | 58.8235 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 81.8315 | 84.1019 | 79.6804 | 71.0030 | 693 | 131 | 698 | 178 | 114 | 64.0449 | |
| gduggal-snapvard | SNP | * | map_l125_m0_e0 | homalt | 97.1180 | 94.7259 | 99.6341 | 71.0042 | 6358 | 354 | 6263 | 23 | 18 | 78.2609 | |
| hfeng-pmm1 | SNP | tv | map_l125_m2_e0 | * | 99.4866 | 99.3147 | 99.6592 | 71.0071 | 16376 | 113 | 16374 | 56 | 16 | 28.5714 | |
| gduggal-bwaplat | SNP | * | map_siren | * | 90.0933 | 82.3317 | 99.4705 | 71.0074 | 120392 | 25836 | 120427 | 641 | 167 | 26.0530 | |
| gduggal-snapplat | SNP | ti | map_l125_m0_e0 | homalt | 91.7078 | 84.8363 | 99.7904 | 71.0087 | 3810 | 681 | 3809 | 8 | 8 | 100.0000 | |
| ckim-gatk | SNP | * | map_siren | het | 95.8468 | 93.5653 | 98.2423 | 71.0090 | 85136 | 5855 | 85122 | 1523 | 109 | 7.1569 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3040 | 97.2229 | 99.4094 | 71.0102 | 32313 | 923 | 38374 | 228 | 113 | 49.5614 | |
| dgrover-gatk | SNP | ti | map_l150_m2_e1 | homalt | 99.5631 | 99.2331 | 99.8953 | 71.0135 | 7634 | 59 | 7634 | 8 | 6 | 75.0000 | |
| jli-custom | SNP | ti | map_l150_m0_e0 | homalt | 99.6006 | 99.3481 | 99.8544 | 71.0140 | 2743 | 18 | 2743 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | map_l150_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 71.0145 | 20 | 0 | 20 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | tv | map_l150_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 71.0145 | 20 | 0 | 20 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D1_5 | HG002compoundhet | * | 18.5546 | 15.5456 | 23.0082 | 71.0145 | 1902 | 10333 | 1880 | 6291 | 6060 | 96.3281 | |
| ndellapenna-hhga | INDEL | D16_PLUS | map_l100_m2_e1 | hetalt | 76.5957 | 66.6667 | 90.0000 | 71.0145 | 20 | 10 | 18 | 2 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 42.0664 | 27.0142 | 95.0000 | 71.0145 | 57 | 154 | 57 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 71.0145 | 0 | 0 | 0 | 20 | 0 | 0.0000 | ||
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4914 | 100.0000 | 97.0276 | 71.0154 | 914 | 0 | 914 | 28 | 1 | 3.5714 | |
| bgallagher-sentieon | SNP | tv | map_l100_m0_e0 | * | 98.9757 | 99.3865 | 98.5682 | 71.0162 | 11016 | 68 | 11015 | 160 | 25 | 15.6250 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8172 | 98.5296 | 99.1064 | 71.0184 | 45030 | 672 | 45029 | 406 | 140 | 34.4828 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8172 | 98.5296 | 99.1064 | 71.0184 | 45030 | 672 | 45029 | 406 | 140 | 34.4828 | |
| hfeng-pmm3 | SNP | ti | map_l125_m2_e1 | * | 99.5907 | 99.5093 | 99.6723 | 71.0190 | 30419 | 150 | 30415 | 100 | 16 | 16.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | * | * | 97.0081 | 96.0953 | 97.9383 | 71.0190 | 6128 | 249 | 6128 | 129 | 82 | 63.5659 | |
| raldana-dualsentieon | SNP | ti | map_l125_m2_e0 | * | 99.1246 | 99.1738 | 99.0754 | 71.0207 | 30008 | 250 | 30004 | 280 | 11 | 3.9286 | |
| hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | homalt | 99.7748 | 99.7543 | 99.7952 | 71.0227 | 7309 | 18 | 7309 | 15 | 6 | 40.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.4548 | 98.0660 | 98.8468 | 71.0240 | 5020 | 99 | 5057 | 59 | 13 | 22.0339 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.0198 | 99.8511 | 88.8320 | 71.0242 | 2682 | 4 | 2601 | 327 | 6 | 1.8349 | |
| eyeh-varpipe | SNP | * | map_l125_m2_e0 | homalt | 99.8542 | 99.8158 | 99.8925 | 71.0277 | 17343 | 32 | 16728 | 18 | 10 | 55.5556 | |
| ckim-dragen | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 95.3846 | 91.1765 | 100.0000 | 71.0280 | 62 | 6 | 62 | 0 | 0 | ||
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 53.0778 | 74.8120 | 41.1290 | 71.0280 | 199 | 67 | 204 | 292 | 37 | 12.6712 | |
| 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 | |
| ciseli-custom | SNP | ti | map_l100_m2_e1 | * | 86.3257 | 83.3424 | 89.5306 | 71.0284 | 41242 | 8243 | 41176 | 4815 | 1336 | 27.7466 | |
| hfeng-pmm3 | SNP | ti | map_l125_m1_e0 | het | 99.4436 | 99.3211 | 99.5663 | 71.0299 | 18142 | 124 | 18138 | 79 | 8 | 10.1266 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.8145 | 99.8409 | 99.7880 | 71.0316 | 1883 | 3 | 1883 | 4 | 2 | 50.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.4013 | 92.5651 | 94.2529 | 71.0322 | 249 | 20 | 246 | 15 | 2 | 13.3333 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.5863 | 99.2023 | 97.9779 | 71.0352 | 3731 | 30 | 3731 | 77 | 75 | 97.4026 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.5863 | 99.2023 | 97.9779 | 71.0352 | 3731 | 30 | 3731 | 77 | 75 | 97.4026 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.1406 | 96.7672 | 99.5536 | 71.0407 | 449 | 15 | 446 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1570 | 98.8791 | 99.4364 | 71.0422 | 1235 | 14 | 1235 | 7 | 4 | 57.1429 | |