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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37551-37600 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 72.5469 | 76.4799 | 68.9986 | 69.9494 | 23308 | 7168 | 24351 | 10941 | 4932 | 45.0781 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 81.0483 | 98.1785 | 69.0078 | 78.8892 | 539 | 10 | 619 | 278 | 189 | 67.9856 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 80.8597 | 97.6155 | 69.0135 | 75.3261 | 47120 | 1151 | 47248 | 21214 | 20445 | 96.3750 | |
| gduggal-snapvard | SNP | tv | map_l250_m2_e1 | het | 80.5690 | 96.7430 | 69.0285 | 92.1093 | 1901 | 64 | 1890 | 848 | 29 | 3.4198 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 75.3753 | 83.0063 | 69.0293 | 65.5447 | 6980 | 1429 | 5639 | 2530 | 425 | 16.7984 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 59.2431 | 51.8849 | 69.0334 | 76.6255 | 16296 | 15112 | 21147 | 9486 | 4195 | 44.2231 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 59.2431 | 51.8849 | 69.0334 | 76.6255 | 16296 | 15112 | 21147 | 9486 | 4195 | 44.2231 | |
| gduggal-snapvard | SNP | * | map_l250_m0_e0 | * | 79.3745 | 93.3489 | 69.0393 | 94.3087 | 1993 | 142 | 1969 | 883 | 24 | 2.7180 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 66.5816 | 64.2857 | 69.0476 | 95.7704 | 27 | 15 | 29 | 13 | 8 | 61.5385 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m0_e0 | het | 81.6901 | 100.0000 | 69.0476 | 94.4591 | 29 | 0 | 29 | 13 | 8 | 61.5385 | |
| ciseli-custom | SNP | * | map_l250_m2_e0 | het | 62.7486 | 57.4894 | 69.0669 | 93.5182 | 2986 | 2208 | 2983 | 1336 | 41 | 3.0689 | |
| 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 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 41.4919 | 29.6496 | 69.0852 | 68.2046 | 220 | 522 | 219 | 98 | 82 | 83.6735 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 78.7482 | 91.5528 | 69.0859 | 44.8186 | 3349 | 309 | 5978 | 2675 | 2192 | 81.9439 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 68.4170 | 67.7419 | 69.1057 | 99.9232 | 84 | 40 | 85 | 38 | 22 | 57.8947 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 56.8695 | 48.3146 | 69.1057 | 74.5868 | 86 | 92 | 85 | 38 | 38 | 100.0000 | |
| ciseli-custom | SNP | ti | map_l250_m0_e0 | het | 64.5750 | 60.5996 | 69.1087 | 96.2053 | 566 | 368 | 566 | 253 | 6 | 2.3715 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 77.4749 | 88.1419 | 69.1110 | 56.7739 | 5887 | 792 | 6258 | 2797 | 1501 | 53.6646 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 81.7352 | 100.0000 | 69.1120 | 78.6831 | 155 | 0 | 179 | 80 | 5 | 6.2500 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 74.0454 | 79.7297 | 69.1176 | 73.4893 | 118 | 30 | 94 | 42 | 42 | 100.0000 | |
| gduggal-snapfb | SNP | ti | HG002complexvar | hetalt | 81.5842 | 99.5169 | 69.1275 | 54.1538 | 206 | 1 | 206 | 92 | 22 | 23.9130 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m2_e0 | het | 80.7151 | 96.9697 | 69.1275 | 96.5865 | 64 | 2 | 103 | 46 | 12 | 26.0870 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m2_e1 | het | 80.7151 | 96.9697 | 69.1275 | 96.6682 | 64 | 2 | 103 | 46 | 12 | 26.0870 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 75.1094 | 82.2222 | 69.1293 | 80.3287 | 592 | 128 | 786 | 351 | 146 | 41.5954 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 80.1325 | 95.2756 | 69.1429 | 50.8427 | 121 | 6 | 121 | 54 | 40 | 74.0741 | |
| gduggal-snapvard | INDEL | C6_15 | * | homalt | 0.0000 | 0.0000 | 69.1489 | 89.5439 | 0 | 0 | 65 | 29 | 21 | 72.4138 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m1_e0 | homalt | 75.3723 | 82.8125 | 69.1589 | 84.6705 | 53 | 11 | 74 | 33 | 30 | 90.9091 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 76.3488 | 85.1613 | 69.1892 | 86.1111 | 132 | 23 | 128 | 57 | 38 | 66.6667 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 74.5086 | 80.7087 | 69.1932 | 71.0477 | 615 | 147 | 849 | 378 | 216 | 57.1429 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 64.5823 | 60.5420 | 69.2004 | 40.5056 | 14857 | 9683 | 14739 | 6560 | 6397 | 97.5152 | |
| anovak-vg | SNP | ti | map_l250_m1_e0 | * | 74.8997 | 81.6117 | 69.2079 | 91.2986 | 3737 | 842 | 3722 | 1656 | 368 | 22.2222 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 48.9376 | 37.8496 | 69.2135 | 34.1472 | 1475 | 2422 | 4928 | 2192 | 2178 | 99.3613 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 81.2428 | 98.3287 | 69.2157 | 47.0954 | 353 | 6 | 353 | 157 | 156 | 99.3631 | |
| ciseli-custom | SNP | * | map_l250_m2_e1 | het | 62.8544 | 57.5608 | 69.2202 | 93.5567 | 3030 | 2234 | 3027 | 1346 | 41 | 3.0461 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 58.0645 | 50.0000 | 69.2308 | 31.5789 | 4 | 4 | 9 | 4 | 4 | 100.0000 | |
| ciseli-custom | INDEL | D1_5 | map_l250_m2_e1 | het | 63.2360 | 58.1967 | 69.2308 | 97.7322 | 71 | 51 | 72 | 32 | 6 | 18.7500 | |
| anovak-vg | INDEL | I6_15 | map_l150_m0_e0 | * | 72.0000 | 75.0000 | 69.2308 | 92.6966 | 6 | 2 | 9 | 4 | 1 | 25.0000 | |
| anovak-vg | INDEL | * | map_l250_m0_e0 | homalt | 64.2857 | 60.0000 | 69.2308 | 98.0168 | 15 | 10 | 18 | 8 | 8 | 100.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l125_m0_e0 | het | 81.8182 | 100.0000 | 69.2308 | 98.4185 | 9 | 0 | 9 | 4 | 1 | 25.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 50.0000 | 39.1304 | 69.2308 | 97.4017 | 27 | 42 | 27 | 12 | 6 | 50.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 76.1538 | 84.6154 | 69.2308 | 93.9943 | 121 | 22 | 117 | 52 | 10 | 19.2308 | |
| eyeh-varpipe | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 69.2308 | 95.7377 | 0 | 0 | 9 | 4 | 3 | 75.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 71.8249 | 74.6024 | 69.2468 | 69.8343 | 1595 | 543 | 1664 | 739 | 192 | 25.9811 | |
| ciseli-custom | SNP | ti | HG002compoundhet | * | 76.3715 | 85.1127 | 69.2586 | 41.8951 | 14876 | 2602 | 14928 | 6626 | 715 | 10.7908 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 60.9623 | 54.4271 | 69.2810 | 72.5314 | 209 | 175 | 212 | 94 | 51 | 54.2553 | |
| anovak-vg | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 63.4822 | 58.5761 | 69.2853 | 62.7923 | 2131 | 1507 | 2249 | 997 | 694 | 69.6088 | |
| jlack-gatk | INDEL | D6_15 | HG002compoundhet | het | 80.7008 | 96.6121 | 69.2893 | 65.6695 | 827 | 29 | 819 | 363 | 325 | 89.5317 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 80.9421 | 97.2812 | 69.3022 | 61.0030 | 10806 | 302 | 10816 | 4791 | 4241 | 88.5201 | |
| mlin-fermikit | SNP | ti | map_l250_m0_e0 | homalt | 50.6550 | 39.9083 | 69.3227 | 79.0659 | 174 | 262 | 174 | 77 | 71 | 92.2078 | |