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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8551-8600 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 43.4048 | 30.1435 | 77.5000 | 51.4416 | 252 | 584 | 248 | 72 | 70 | 97.2222 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m2_e0 | * | 90.3981 | 94.5158 | 86.6242 | 88.6067 | 810 | 47 | 1088 | 168 | 70 | 41.6667 | |
| gduggal-snapplat | SNP | tv | map_l250_m2_e0 | het | 85.9616 | 81.9072 | 90.4382 | 95.1114 | 1589 | 351 | 1589 | 168 | 70 | 41.6667 | |
| gduggal-snapplat | SNP | tv | map_l250_m2_e1 | het | 86.0422 | 82.0356 | 90.4602 | 95.1420 | 1612 | 353 | 1612 | 170 | 70 | 41.1765 | |
| gduggal-snapvard | INDEL | C6_15 | HG002compoundhet | het | 0.0000 | 0.0000 | 25.8760 | 72.2513 | 0 | 0 | 96 | 275 | 70 | 25.4545 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 12.8457 | 8.1136 | 30.8219 | 63.7717 | 40 | 453 | 45 | 101 | 70 | 69.3069 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 19.4706 | 14.4444 | 29.8611 | 63.4518 | 39 | 231 | 43 | 101 | 70 | 69.3069 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 2.8165 | 1.5003 | 22.9630 | 60.5263 | 29 | 1904 | 31 | 104 | 70 | 67.3077 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 3.8186 | 2.0873 | 22.3881 | 59.7598 | 11 | 516 | 30 | 104 | 70 | 67.3077 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 75.4470 | 65.9048 | 88.2202 | 66.0139 | 692 | 358 | 689 | 92 | 70 | 76.0870 | |
| ghariani-varprowl | SNP | * | segdup | * | 97.8779 | 99.6437 | 96.1737 | 92.2561 | 27967 | 100 | 27975 | 1113 | 70 | 6.2893 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.0963 | 99.8550 | 96.3986 | 45.7203 | 2754 | 4 | 2757 | 103 | 70 | 67.9612 | |
| hfeng-pmm1 | INDEL | * | HG002complexvar | homalt | 99.7782 | 99.8372 | 99.7192 | 55.9241 | 26983 | 44 | 26991 | 76 | 70 | 92.1053 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5102 | 97.4083 | 99.6374 | 38.9351 | 23904 | 636 | 23906 | 87 | 70 | 80.4598 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.4592 | 94.7518 | 94.1685 | 74.3063 | 1336 | 74 | 1308 | 81 | 70 | 86.4198 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 60.3960 | 85.9155 | 46.5649 | 47.8088 | 61 | 10 | 61 | 70 | 70 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.3376 | 93.0985 | 97.6870 | 52.9536 | 3251 | 241 | 3252 | 77 | 70 | 90.9091 | |
| hfeng-pmm2 | INDEL | D16_PLUS | * | * | 97.4049 | 96.6244 | 98.1982 | 67.4168 | 6555 | 229 | 6540 | 120 | 70 | 58.3333 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.6684 | 95.5791 | 97.7828 | 72.0972 | 4778 | 221 | 4763 | 108 | 70 | 64.8148 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.6684 | 95.5791 | 97.7828 | 72.0972 | 4778 | 221 | 4763 | 108 | 70 | 64.8148 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.3452 | 92.0365 | 96.7728 | 58.9950 | 2219 | 192 | 2219 | 74 | 70 | 94.5946 | |
| ckim-vqsr | INDEL | D6_15 | HG002complexvar | * | 98.0282 | 97.5292 | 98.5322 | 58.5722 | 5171 | 131 | 5169 | 77 | 70 | 90.9091 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.2217 | 96.5630 | 88.2540 | 72.0249 | 590 | 21 | 556 | 74 | 70 | 94.5946 | |
| ckim-vqsr | INDEL | * | * | hetalt | 95.4941 | 91.6313 | 99.6969 | 55.9167 | 23125 | 2112 | 23354 | 71 | 70 | 98.5915 | |
| egarrison-hhga | INDEL | I6_15 | HG002compoundhet | het | 73.2414 | 85.0962 | 64.2857 | 79.7719 | 177 | 31 | 171 | 95 | 70 | 73.6842 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 69.0773 | 96.1442 | 0 | 1 | 277 | 124 | 70 | 56.4516 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 69.0773 | 96.1442 | 0 | 1 | 277 | 124 | 70 | 56.4516 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.4673 | 97.4995 | 99.4544 | 67.8523 | 15675 | 402 | 15676 | 86 | 70 | 81.3953 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.4673 | 97.4995 | 99.4544 | 67.8523 | 15675 | 402 | 15676 | 86 | 70 | 81.3953 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 92.8637 | 87.9925 | 98.3058 | 30.4621 | 4199 | 573 | 4468 | 77 | 70 | 90.9091 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | hetalt | 82.1814 | 73.2478 | 93.5968 | 47.9210 | 742 | 271 | 1184 | 81 | 69 | 85.1852 | |
| ckim-vqsr | INDEL | D16_PLUS | * | het | 97.9651 | 99.2719 | 96.6923 | 79.4267 | 3136 | 23 | 2894 | 99 | 69 | 69.6970 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002compoundhet | homalt | 5.9406 | 100.0000 | 3.0612 | 65.7343 | 3 | 0 | 3 | 95 | 69 | 72.6316 | |
| egarrison-hhga | INDEL | I1_5 | * | hetalt | 97.2375 | 95.2479 | 99.3119 | 61.7967 | 10663 | 532 | 10681 | 74 | 69 | 93.2432 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.5189 | 98.9555 | 94.1994 | 86.2906 | 1800 | 19 | 1559 | 96 | 69 | 71.8750 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.5189 | 98.9555 | 94.1994 | 86.2906 | 1800 | 19 | 1559 | 96 | 69 | 71.8750 | |
| ckim-vqsr | INDEL | D1_5 | HG002complexvar | * | 99.4499 | 99.1625 | 99.7391 | 58.6120 | 32441 | 274 | 32494 | 85 | 69 | 81.1765 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0024 | 96.5790 | 99.4683 | 68.2096 | 15527 | 550 | 15528 | 83 | 69 | 83.1325 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0024 | 96.5790 | 99.4683 | 68.2096 | 15527 | 550 | 15528 | 83 | 69 | 83.1325 | |
| dgrover-gatk | SNP | * | map_l125_m2_e0 | * | 99.3279 | 99.3194 | 99.3363 | 74.2156 | 46405 | 318 | 46399 | 310 | 69 | 22.2581 | |
| dgrover-gatk | SNP | * | map_l125_m2_e1 | * | 99.3336 | 99.3263 | 99.3409 | 74.2508 | 46884 | 318 | 46878 | 311 | 69 | 22.1865 | |
| dgrover-gatk | INDEL | D6_15 | HG002complexvar | * | 98.2978 | 98.0385 | 98.5584 | 58.5437 | 5198 | 104 | 5196 | 76 | 69 | 90.7895 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 80.1806 | 69.7709 | 94.2412 | 74.1188 | 944 | 409 | 1211 | 74 | 69 | 93.2432 | |
| eyeh-varpipe | INDEL | * | map_l100_m2_e0 | het | 96.1330 | 95.6220 | 96.6495 | 82.3053 | 2206 | 101 | 3000 | 104 | 69 | 66.3462 | |
| eyeh-varpipe | INDEL | * | map_l100_m2_e1 | het | 96.0818 | 95.5186 | 96.6518 | 82.4853 | 2238 | 105 | 3031 | 105 | 69 | 65.7143 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 83.8326 | 78.4242 | 90.0421 | 57.6603 | 647 | 178 | 642 | 71 | 69 | 97.1831 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 77.0749 | 65.9030 | 92.8079 | 55.0487 | 489 | 253 | 942 | 73 | 69 | 94.5205 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 83.8326 | 78.4242 | 90.0421 | 57.6603 | 647 | 178 | 642 | 71 | 69 | 97.1831 | |
| eyeh-varpipe | SNP | ti | HG002complexvar | homalt | 99.9332 | 99.9188 | 99.9475 | 17.3280 | 193307 | 157 | 180798 | 95 | 69 | 72.6316 | |
| gduggal-bwaplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 86.9355 | 77.6393 | 98.7607 | 75.1429 | 21489 | 6189 | 21517 | 270 | 69 | 25.5556 | |