PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11351-11400 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | ti | map_l125_m1_e0 | homalt | 99.2298 | 98.5695 | 99.8991 | 63.8084 | 10887 | 158 | 10887 | 11 | 9 | 81.8182 | |
| gduggal-bwafb | SNP | tv | map_l125_m0_e0 | homalt | 99.2297 | 98.6042 | 99.8632 | 74.1727 | 2190 | 31 | 2190 | 3 | 3 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | segdup | * | 99.2297 | 99.1840 | 99.2754 | 94.8823 | 1094 | 9 | 1096 | 8 | 2 | 25.0000 | |
| hfeng-pmm1 | SNP | tv | map_l100_m0_e0 | het | 99.2295 | 98.9754 | 99.4850 | 70.4702 | 7148 | 74 | 7147 | 37 | 11 | 29.7297 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.2293 | 99.4208 | 99.0385 | 80.7763 | 515 | 3 | 515 | 5 | 3 | 60.0000 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.2293 | 98.4908 | 99.9790 | 69.4708 | 4764 | 73 | 4764 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | * | HG002compoundhet | * | 99.2284 | 98.6058 | 99.8588 | 41.2826 | 25462 | 360 | 25455 | 36 | 34 | 94.4444 | |
| ndellapenna-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2284 | 98.8877 | 99.5715 | 51.9423 | 27648 | 311 | 27655 | 119 | 75 | 63.0252 | |
| dgrover-gatk | SNP | ti | map_l150_m1_e0 | * | 99.2284 | 99.1782 | 99.2787 | 76.9359 | 19550 | 162 | 19546 | 142 | 35 | 24.6479 | |
| hfeng-pmm2 | SNP | * | map_l150_m1_e0 | * | 99.2283 | 99.3662 | 99.0908 | 76.3631 | 30415 | 194 | 30409 | 279 | 34 | 12.1864 | |
| ckim-isaac | SNP | tv | func_cds | * | 99.2280 | 98.5129 | 99.9536 | 23.4678 | 4306 | 65 | 4306 | 2 | 0 | 0.0000 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | homalt | 99.2279 | 98.5911 | 99.8729 | 66.9215 | 17285 | 247 | 17285 | 22 | 16 | 72.7273 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2278 | 99.3890 | 99.0672 | 63.8278 | 18055 | 111 | 18055 | 170 | 157 | 92.3529 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2278 | 99.3890 | 99.0672 | 63.8278 | 18055 | 111 | 18055 | 170 | 157 | 92.3529 | |
| gduggal-snapfb | SNP | ti | * | het | 99.2278 | 99.8088 | 98.6535 | 22.6951 | 1279446 | 2451 | 1279980 | 17470 | 996 | 5.7012 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.2278 | 99.7413 | 98.7196 | 77.9938 | 771 | 2 | 771 | 10 | 6 | 60.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.2278 | 99.6124 | 98.8462 | 83.9208 | 257 | 1 | 257 | 3 | 2 | 66.6667 | |
| ndellapenna-hhga | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2273 | 98.7916 | 99.6668 | 58.8530 | 34991 | 428 | 34997 | 117 | 50 | 42.7350 | |
| ckim-gatk | INDEL | * | * | * | 99.2271 | 99.1551 | 99.2992 | 60.7185 | 341631 | 2911 | 341492 | 2410 | 1553 | 64.4398 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.2269 | 98.6744 | 99.7855 | 71.4089 | 1861 | 25 | 1861 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l125_m2_e1 | homalt | 99.2268 | 99.4832 | 98.9717 | 85.5417 | 770 | 4 | 770 | 8 | 4 | 50.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.2265 | 98.7673 | 99.6899 | 57.2281 | 641 | 8 | 643 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2264 | 98.9027 | 99.5522 | 39.1407 | 6670 | 74 | 6670 | 30 | 1 | 3.3333 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e1 | * | 99.2263 | 98.6673 | 99.7916 | 56.2116 | 73741 | 996 | 73738 | 154 | 24 | 15.5844 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2263 | 99.6260 | 98.8298 | 49.0498 | 3996 | 15 | 4054 | 48 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2263 | 98.5599 | 99.9019 | 64.0348 | 17315 | 253 | 17306 | 17 | 4 | 23.5294 | |
| egarrison-hhga | SNP | * | map_l125_m1_e0 | het | 99.2263 | 98.7039 | 99.7544 | 69.9636 | 28024 | 368 | 28024 | 69 | 28 | 40.5797 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.2259 | 98.5684 | 99.8923 | 66.7145 | 1859 | 27 | 1855 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e1 | homalt | 99.2258 | 99.3540 | 99.0979 | 85.7143 | 769 | 5 | 769 | 7 | 4 | 57.1429 | |
| qzeng-custom | SNP | * | HG002complexvar | homalt | 99.2256 | 98.6350 | 99.8233 | 20.2251 | 284636 | 3939 | 274538 | 486 | 380 | 78.1893 | |
| ckim-vqsr | INDEL | * | map_l100_m1_e0 | homalt | 99.2254 | 99.1850 | 99.2659 | 84.2639 | 1217 | 10 | 1217 | 9 | 5 | 55.5556 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.2254 | 99.0858 | 99.3653 | 88.4800 | 1409 | 13 | 1409 | 9 | 8 | 88.8889 | |
| hfeng-pmm3 | INDEL | I1_5 | map_siren | het | 99.2252 | 98.9292 | 99.5230 | 79.8146 | 1663 | 18 | 1669 | 8 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | ti | map_l125_m2_e0 | homalt | 99.2250 | 98.6353 | 99.8218 | 69.1124 | 11203 | 155 | 11203 | 20 | 15 | 75.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.2248 | 99.2248 | 99.2248 | 63.9161 | 256 | 2 | 256 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | SNP | tv | map_l100_m0_e0 | hetalt | 99.2248 | 100.0000 | 98.4615 | 74.1036 | 16 | 0 | 64 | 1 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | tv | map_l150_m1_e0 | hetalt | 99.2248 | 100.0000 | 98.4615 | 76.1905 | 20 | 0 | 64 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.2248 | 99.2248 | 99.2248 | 62.6628 | 256 | 2 | 256 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m2_e0 | homalt | 99.2248 | 98.4615 | 100.0000 | 85.7143 | 64 | 1 | 64 | 0 | 0 | ||
| astatham-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2248 | 98.9691 | 99.4819 | 76.0248 | 384 | 4 | 384 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e1 | homalt | 99.2248 | 99.2248 | 99.2248 | 87.3859 | 768 | 6 | 768 | 6 | 3 | 50.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2248 | 98.9691 | 99.4819 | 76.1286 | 384 | 4 | 384 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.2247 | 98.6289 | 99.8277 | 67.0916 | 30716 | 427 | 30716 | 53 | 3 | 5.6604 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.2247 | 98.6289 | 99.8277 | 67.0916 | 30716 | 427 | 30716 | 53 | 3 | 5.6604 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2241 | 98.9337 | 99.5161 | 74.5848 | 63744 | 687 | 63757 | 310 | 273 | 88.0645 | |
| jlack-gatk | SNP | * | map_l125_m2_e0 | homalt | 99.2238 | 98.5842 | 99.8717 | 66.9110 | 17129 | 246 | 17129 | 22 | 16 | 72.7273 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.2238 | 98.4595 | 100.0000 | 33.1973 | 1470 | 23 | 1473 | 0 | 0 | ||
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2237 | 99.4958 | 98.9530 | 45.8387 | 6710 | 34 | 6710 | 71 | 1 | 1.4085 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.2235 | 98.4589 | 100.0000 | 19.2146 | 575 | 9 | 576 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | * | map_l100_m2_e0 | * | 99.2235 | 98.6534 | 99.8003 | 56.1674 | 72968 | 996 | 72965 | 146 | 24 | 16.4384 | |