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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9751-9800 / 86044 show all | |||||||||||||||
| gduggal-bwafb | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.4977 | 97.4798 | 88.0000 | 79.7980 | 967 | 25 | 968 | 132 | 9 | 6.8182 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.6125 | 96.9110 | 96.3159 | 71.1607 | 3451 | 110 | 3451 | 132 | 77 | 58.3333 | |
| jlack-gatk | INDEL | I16_PLUS | * | homalt | 95.7191 | 99.5516 | 92.1708 | 70.2698 | 1554 | 7 | 1554 | 132 | 127 | 96.2121 | |
| hfeng-pmm1 | SNP | * | map_l150_m1_e0 | * | 99.3336 | 99.1016 | 99.5666 | 73.6726 | 30334 | 275 | 30328 | 132 | 37 | 28.0303 | |
| ciseli-custom | INDEL | D1_5 | segdup | * | 89.4589 | 90.6618 | 88.2875 | 95.2028 | 1000 | 103 | 995 | 132 | 80 | 60.6061 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m0_e0 | het | 63.7487 | 65.6442 | 61.9597 | 88.3791 | 214 | 112 | 215 | 132 | 108 | 81.8182 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e0 | * | 55.9084 | 48.7476 | 65.5352 | 92.4128 | 253 | 266 | 251 | 132 | 111 | 84.0909 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m1_e0 | * | 55.6515 | 48.6166 | 65.0667 | 91.6126 | 246 | 260 | 244 | 131 | 111 | 84.7328 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.5044 | 99.5907 | 91.7402 | 55.4244 | 1460 | 6 | 1455 | 131 | 24 | 18.3206 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5991 | 99.7991 | 99.4000 | 72.8360 | 21855 | 44 | 21701 | 131 | 126 | 96.1832 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.9595 | 94.7878 | 95.1319 | 62.5104 | 2546 | 140 | 2560 | 131 | 60 | 45.8015 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.7633 | 99.8064 | 97.7418 | 57.2891 | 5670 | 11 | 5670 | 131 | 129 | 98.4733 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 26.5368 | 18.6688 | 45.8678 | 43.7209 | 115 | 501 | 111 | 131 | 110 | 83.9695 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7144 | 99.8963 | 99.5331 | 54.5778 | 27930 | 29 | 27929 | 131 | 10 | 7.6336 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.9784 | 98.5004 | 99.4611 | 39.0941 | 24172 | 368 | 24179 | 131 | 123 | 93.8931 | |
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.0035 | 98.2095 | 95.8267 | 71.5438 | 2962 | 54 | 3008 | 131 | 4 | 3.0534 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3080 | 99.3771 | 99.2391 | 58.1058 | 17070 | 107 | 17085 | 131 | 66 | 50.3817 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m0_e0 | het | 79.3587 | 98.0198 | 66.6667 | 92.5863 | 198 | 4 | 262 | 131 | 20 | 15.2672 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 28.0220 | 59.5556 | 0 | 388 | 51 | 131 | 41 | 31.2977 | |
| gduggal-snapfb | SNP | * | HG002complexvar | hetalt | 82.4000 | 99.6774 | 70.2273 | 54.9642 | 309 | 1 | 309 | 131 | 28 | 21.3740 | |
| gduggal-snapfb | SNP | tv | HG002complexvar | hetalt | 82.4000 | 99.6774 | 70.2273 | 54.9642 | 309 | 1 | 309 | 131 | 28 | 21.3740 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 91.3272 | 98.3182 | 85.2643 | 79.7078 | 760 | 13 | 758 | 131 | 122 | 93.1298 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.3151 | 97.0053 | 97.6268 | 51.2109 | 1652 | 51 | 5389 | 131 | 84 | 64.1221 | |
| qzeng-custom | INDEL | I6_15 | map_siren | het | 67.1265 | 81.8182 | 56.9079 | 78.8889 | 117 | 26 | 173 | 131 | 7 | 5.3435 | |
| qzeng-custom | SNP | * | map_l100_m1_e0 | homalt | 87.6866 | 78.4579 | 99.3758 | 57.2534 | 21186 | 5817 | 20855 | 131 | 129 | 98.4733 | |
| qzeng-custom | INDEL | * | map_l125_m1_e0 | * | 82.7094 | 73.9440 | 93.8324 | 91.4171 | 1558 | 549 | 1993 | 131 | 45 | 34.3511 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e0 | het | 70.4610 | 54.8457 | 98.5073 | 60.6122 | 8653 | 7124 | 8645 | 131 | 2 | 1.5267 | |
| ltrigg-rtg2 | SNP | tv | map_siren | * | 99.4071 | 99.1030 | 99.7130 | 49.8109 | 45518 | 412 | 45517 | 131 | 9 | 6.8702 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.2409 | 95.9430 | 86.9781 | 77.5847 | 875 | 37 | 875 | 131 | 121 | 92.3664 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 87.0552 | 97.3435 | 78.7338 | 77.6244 | 513 | 14 | 485 | 131 | 131 | 100.0000 | |
| raldana-dualsentieon | SNP | * | HG002complexvar | * | 99.8769 | 99.7713 | 99.9826 | 18.8281 | 752656 | 1725 | 752511 | 131 | 47 | 35.8779 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.5286 | 88.9672 | 94.2418 | 58.4475 | 2145 | 266 | 2144 | 131 | 120 | 91.6031 | |
| rpoplin-dv42 | SNP | * | map_l150_m0_e0 | het | 98.3050 | 98.2620 | 98.3480 | 79.4809 | 7802 | 138 | 7799 | 131 | 82 | 62.5954 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e0 | * | 99.1376 | 98.9177 | 99.3584 | 75.0879 | 20290 | 222 | 20286 | 131 | 93 | 70.9924 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002compoundhet | * | 95.6235 | 92.5950 | 98.8568 | 63.0617 | 11329 | 906 | 11328 | 131 | 126 | 96.1832 | |
| hfeng-pmm2 | INDEL | D6_15 | * | het | 98.1073 | 97.3775 | 98.8481 | 59.1502 | 11288 | 304 | 11242 | 131 | 113 | 86.2595 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9876 | 99.1538 | 98.8219 | 62.9494 | 11014 | 94 | 10989 | 131 | 41 | 31.2977 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.6701 | 85.6906 | 94.0373 | 58.9423 | 2066 | 345 | 2066 | 131 | 124 | 94.6565 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 68.4640 | 56.8794 | 85.9743 | 82.6329 | 802 | 608 | 803 | 131 | 18 | 13.7405 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 82.6140 | 71.5225 | 97.7770 | 46.1187 | 5764 | 2295 | 5762 | 131 | 129 | 98.4733 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.9738 | 99.7961 | 98.1650 | 37.3497 | 7340 | 15 | 7008 | 131 | 12 | 9.1603 | |
| gduggal-bwavard | INDEL | C6_15 | * | * | 79.7527 | 100.0000 | 66.3239 | 94.4109 | 7 | 0 | 258 | 131 | 32 | 24.4275 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 82.6140 | 71.5225 | 97.7770 | 46.1187 | 5764 | 2295 | 5762 | 131 | 129 | 98.4733 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002compoundhet | het | 69.2403 | 61.1765 | 79.7527 | 88.3612 | 520 | 330 | 516 | 131 | 31 | 23.6641 | |
| gduggal-bwaplat | SNP | ti | * | homalt | 99.0843 | 98.2012 | 99.9834 | 17.0820 | 788593 | 14445 | 788346 | 131 | 112 | 85.4962 | |
| gduggal-bwavard | SNP | tv | * | homalt | 99.4965 | 99.0327 | 99.9647 | 19.0358 | 373475 | 3648 | 371220 | 131 | 86 | 65.6489 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 93.3528 | 88.7263 | 98.4883 | 45.1727 | 8248 | 1048 | 8535 | 131 | 123 | 93.8931 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 92.6668 | 94.9700 | 90.4727 | 59.4634 | 1265 | 67 | 1244 | 131 | 94 | 71.7557 | |
| dgrover-gatk | SNP | * | segdup | het | 99.5334 | 99.8152 | 99.2533 | 91.5277 | 17285 | 32 | 17279 | 130 | 3 | 2.3077 | |
| dgrover-gatk | INDEL | D6_15 | HG002compoundhet | homalt | 26.9663 | 100.0000 | 15.5844 | 70.3846 | 24 | 0 | 24 | 130 | 130 | 100.0000 | |