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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22301-22350 / 86044 show all | |||||||||||||||
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2074 | 99.1262 | 99.2888 | 51.5248 | 1815 | 16 | 1815 | 13 | 1 | 7.6923 | |
| hfeng-pmm2 | SNP | * | map_l125_m2_e0 | * | 99.3766 | 99.4649 | 99.2885 | 73.4867 | 46473 | 250 | 46467 | 333 | 39 | 11.7117 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.0450 | 93.0070 | 99.2883 | 56.0250 | 266 | 20 | 279 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7354 | 96.2302 | 99.2883 | 62.1142 | 8092 | 317 | 8092 | 58 | 49 | 84.4828 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1456 | 97.0290 | 99.2882 | 49.3199 | 17146 | 525 | 17018 | 122 | 80 | 65.5738 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1456 | 97.0290 | 99.2882 | 49.3199 | 17146 | 525 | 17018 | 122 | 80 | 65.5738 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e0 | * | 99.4275 | 99.5674 | 99.2880 | 67.0766 | 73644 | 320 | 73633 | 528 | 81 | 15.3409 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.4083 | 95.5986 | 99.2879 | 34.0400 | 7059 | 325 | 15476 | 111 | 102 | 91.8919 | |
| cchapple-custom | SNP | tv | segdup | * | 99.5434 | 99.8008 | 99.2874 | 93.0362 | 8515 | 17 | 8499 | 61 | 9 | 14.7541 | |
| hfeng-pmm2 | INDEL | * | map_siren | homalt | 99.3610 | 99.4350 | 99.2871 | 79.4763 | 2640 | 15 | 2646 | 19 | 12 | 63.1579 | |
| anovak-vg | SNP | * | map_l100_m0_e0 | homalt | 87.9850 | 78.9931 | 99.2870 | 62.5031 | 9179 | 2441 | 9052 | 65 | 58 | 89.2308 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 91.9498 | 85.6224 | 99.2869 | 60.0604 | 9189 | 1543 | 9190 | 66 | 25 | 37.8788 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3679 | 99.4491 | 99.2868 | 52.6423 | 6679 | 37 | 6682 | 48 | 39 | 81.2500 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.1690 | 99.0514 | 99.2868 | 87.9764 | 1253 | 12 | 1253 | 9 | 4 | 44.4444 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.6644 | 98.0498 | 99.2867 | 71.5861 | 5983 | 119 | 5985 | 43 | 7 | 16.2791 | |
| jli-custom | INDEL | * | map_siren | homalt | 99.3607 | 99.4350 | 99.2865 | 79.8135 | 2640 | 15 | 2644 | 19 | 11 | 57.8947 | |
| gduggal-bwaplat | INDEL | * | map_l125_m2_e1 | * | 76.7237 | 62.5169 | 99.2862 | 94.5201 | 1391 | 834 | 1391 | 10 | 2 | 20.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 93.4411 | 88.2459 | 99.2862 | 62.0370 | 15158 | 2019 | 15162 | 109 | 22 | 20.1835 | |
| dgrover-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4181 | 99.5505 | 99.2861 | 75.9770 | 48054 | 217 | 47844 | 344 | 262 | 76.1628 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 89.8495 | 82.0513 | 99.2857 | 77.1491 | 416 | 91 | 417 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.1873 | 97.1129 | 99.2857 | 84.4854 | 1110 | 33 | 1112 | 8 | 1 | 12.5000 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m0_e0 | homalt | 97.2366 | 95.2703 | 99.2857 | 85.6263 | 141 | 7 | 139 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | * | 98.8559 | 98.4299 | 99.2857 | 62.5855 | 75730 | 1208 | 75611 | 544 | 244 | 44.8529 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.8571 | 92.6573 | 99.2857 | 55.6260 | 265 | 21 | 278 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3786 | 99.4717 | 99.2856 | 75.6401 | 48016 | 255 | 47805 | 344 | 267 | 77.6163 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.9589 | 98.6346 | 99.2853 | 46.9834 | 1806 | 25 | 1806 | 13 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l125_m2_e1 | * | 97.4484 | 95.6785 | 99.2851 | 80.9823 | 1107 | 50 | 1111 | 8 | 2 | 25.0000 | |
| ltrigg-rtg1 | INDEL | * | segdup | * | 98.6010 | 97.9264 | 99.2849 | 92.9892 | 2503 | 53 | 2499 | 18 | 5 | 27.7778 | |
| dgrover-gatk | SNP | * | map_l100_m1_e0 | het | 99.3755 | 99.4665 | 99.2846 | 70.4056 | 45117 | 242 | 45106 | 325 | 62 | 19.0769 | |
| anovak-vg | SNP | ti | map_l100_m0_e0 | homalt | 88.2155 | 79.3671 | 99.2843 | 61.2798 | 6170 | 1604 | 6104 | 44 | 41 | 93.1818 | |
| ckim-dragen | INDEL | * | HG002complexvar | homalt | 99.5434 | 99.8039 | 99.2843 | 57.4048 | 26974 | 53 | 26911 | 194 | 188 | 96.9072 | |
| dgrover-gatk | SNP | tv | segdup | het | 99.5280 | 99.7730 | 99.2842 | 92.5335 | 5275 | 12 | 5271 | 38 | 0 | 0.0000 | |
| mlin-fermikit | SNP | * | HG002complexvar | * | 98.2239 | 97.1863 | 99.2840 | 18.6883 | 733159 | 21226 | 733074 | 5287 | 5014 | 94.8364 | |
| qzeng-custom | SNP | * | * | hetalt | 98.2537 | 97.2445 | 99.2840 | 55.4492 | 847 | 24 | 832 | 6 | 5 | 83.3333 | |
| qzeng-custom | SNP | tv | * | hetalt | 98.2537 | 97.2445 | 99.2840 | 55.4492 | 847 | 24 | 832 | 6 | 5 | 83.3333 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 90.9078 | 83.8350 | 99.2840 | 42.0470 | 752 | 145 | 832 | 6 | 5 | 83.3333 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.1980 | 95.1981 | 99.2838 | 34.4662 | 10884 | 549 | 10951 | 79 | 11 | 13.9241 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.0968 | 96.9379 | 99.2838 | 80.1281 | 1108 | 35 | 1109 | 8 | 1 | 12.5000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l150_m1_e0 | * | 97.8071 | 96.3738 | 99.2837 | 81.2818 | 691 | 26 | 693 | 5 | 1 | 20.0000 | |
| rpoplin-dv42 | SNP | tv | map_l125_m2_e1 | * | 99.1554 | 99.0274 | 99.2837 | 70.9387 | 16495 | 162 | 16493 | 119 | 70 | 58.8235 | |
| hfeng-pmm2 | INDEL | I1_5 | map_siren | het | 98.9267 | 98.5723 | 99.2836 | 81.6659 | 1657 | 24 | 1663 | 12 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.8559 | 92.6573 | 99.2832 | 57.2741 | 265 | 21 | 277 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 91.6249 | 85.0636 | 99.2832 | 28.0928 | 803 | 141 | 831 | 6 | 6 | 100.0000 | |
| qzeng-custom | SNP | ti | * | hetalt | 98.0808 | 96.9072 | 99.2832 | 55.8893 | 564 | 18 | 554 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l150_m2_e0 | het | 95.1038 | 91.2621 | 99.2832 | 83.3631 | 282 | 27 | 277 | 2 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m0_e0 | homalt | 98.5803 | 97.8873 | 99.2832 | 81.1995 | 278 | 6 | 277 | 2 | 1 | 50.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 73.1222 | 57.8728 | 99.2832 | 78.7023 | 555 | 404 | 554 | 4 | 2 | 50.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 75.4333 | 60.8225 | 99.2832 | 50.1786 | 281 | 181 | 277 | 2 | 1 | 50.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5325 | 99.7837 | 99.2826 | 64.9925 | 1384 | 3 | 1384 | 10 | 0 | 0.0000 | |
| dgrover-gatk | SNP | ti | map_l150_m2_e0 | * | 99.2366 | 99.1907 | 99.2825 | 78.2548 | 20346 | 166 | 20342 | 147 | 36 | 24.4898 | |