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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
65551-65600 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | D16_PLUS | map_l100_m1_e0 | * | 43.1655 | 33.3333 | 61.2245 | 89.3709 | 29 | 58 | 30 | 19 | 14 | 73.6842 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m0_e0 | * | 48.2759 | 44.6809 | 52.5000 | 95.1574 | 21 | 26 | 21 | 19 | 9 | 47.3684 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.3735 | 99.2041 | 99.5436 | 81.7204 | 4113 | 33 | 4144 | 19 | 8 | 42.1053 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.8852 | 99.5902 | 96.2376 | 72.0686 | 486 | 2 | 486 | 19 | 18 | 94.7368 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.7393 | 98.6981 | 98.7805 | 73.6869 | 1592 | 21 | 1539 | 19 | 14 | 73.6842 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.1612 | 99.0320 | 99.2908 | 52.9835 | 2660 | 26 | 2660 | 19 | 2 | 10.5263 | |
| ckim-gatk | SNP | ti | map_l250_m0_e0 | * | 64.2229 | 47.9562 | 97.1893 | 97.9938 | 657 | 713 | 657 | 19 | 2 | 10.5263 | |
| ckim-gatk | SNP | ti | map_l250_m0_e0 | het | 65.2051 | 49.3576 | 96.0417 | 98.3380 | 461 | 473 | 461 | 19 | 2 | 10.5263 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2626 | 99.2439 | 99.2814 | 84.2685 | 2625 | 20 | 2625 | 19 | 7 | 36.8421 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 92.8267 | 87.4867 | 98.8609 | 64.0750 | 1650 | 236 | 1649 | 19 | 5 | 26.3158 | |
| ckim-isaac | INDEL | * | map_l100_m0_e0 | * | 78.2134 | 65.0032 | 98.1625 | 86.3822 | 1016 | 547 | 1015 | 19 | 7 | 36.8421 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m0_e0 | het | 95.6942 | 96.8116 | 94.6023 | 89.6043 | 334 | 11 | 333 | 19 | 1 | 5.2632 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6636 | 97.0202 | 98.3156 | 79.8607 | 1107 | 34 | 1109 | 19 | 14 | 73.6842 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.7960 | 96.0049 | 99.6553 | 58.3497 | 5503 | 229 | 5493 | 19 | 12 | 63.1579 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m0_e0 | * | 96.7796 | 97.0534 | 96.5074 | 85.5741 | 527 | 16 | 525 | 19 | 5 | 26.3158 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m1_e0 | * | 95.4183 | 94.6640 | 96.1847 | 89.6830 | 479 | 27 | 479 | 19 | 5 | 26.3158 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m2_e0 | * | 95.5340 | 94.7977 | 96.2818 | 90.8259 | 492 | 27 | 492 | 19 | 5 | 26.3158 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8692 | 99.9098 | 99.8288 | 57.6963 | 11074 | 10 | 11076 | 19 | 3 | 15.7895 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7896 | 99.8368 | 99.7424 | 34.4616 | 7343 | 12 | 7358 | 19 | 8 | 42.1053 | |
| ckim-dragen | SNP | * | map_l150_m0_e0 | homalt | 99.3015 | 99.0707 | 99.5334 | 70.2317 | 4051 | 38 | 4053 | 19 | 16 | 84.2105 | |
| ckim-dragen | SNP | * | map_l250_m2_e0 | homalt | 99.1424 | 98.9948 | 99.2905 | 83.9458 | 2659 | 27 | 2659 | 19 | 16 | 84.2105 | |
| ckim-dragen | SNP | * | map_l250_m2_e1 | homalt | 99.1340 | 98.9698 | 99.2986 | 84.0205 | 2690 | 28 | 2690 | 19 | 16 | 84.2105 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8050 | 99.7787 | 99.8314 | 54.7146 | 11271 | 25 | 11248 | 19 | 17 | 89.4737 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4416 | 99.2346 | 99.6494 | 43.8167 | 3630 | 28 | 5401 | 19 | 13 | 68.4211 | |
| cchapple-custom | INDEL | C1_5 | map_l100_m2_e0 | * | 0.0000 | 0.0000 | 65.4545 | 95.2132 | 0 | 0 | 36 | 19 | 9 | 47.3684 | |
| cchapple-custom | INDEL | C1_5 | map_l100_m2_e0 | het | 0.0000 | 0.0000 | 57.7778 | 95.0166 | 0 | 0 | 26 | 19 | 9 | 47.3684 | |
| cchapple-custom | INDEL | C1_5 | map_l100_m2_e1 | * | 0.0000 | 0.0000 | 66.0714 | 95.2421 | 0 | 0 | 37 | 19 | 9 | 47.3684 | |
| cchapple-custom | INDEL | C1_5 | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 58.6957 | 95.0324 | 0 | 0 | 27 | 19 | 9 | 47.3684 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.0943 | 97.2973 | 92.9889 | 49.2509 | 252 | 7 | 252 | 19 | 17 | 89.4737 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.4362 | 95.5112 | 97.3793 | 65.7857 | 383 | 18 | 706 | 19 | 18 | 94.7368 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.7357 | 95.1299 | 98.3966 | 42.6150 | 1172 | 60 | 1166 | 19 | 9 | 47.3684 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m0_e0 | * | 94.8470 | 96.1938 | 93.5374 | 90.3764 | 278 | 11 | 275 | 19 | 3 | 15.7895 | |
| cchapple-custom | INDEL | D6_15 | map_siren | het | 94.8724 | 94.6429 | 95.1031 | 81.6462 | 265 | 15 | 369 | 19 | 8 | 42.1053 | |
| ckim-vqsr | SNP | tv | * | homalt | 98.8369 | 97.7055 | 99.9948 | 20.5893 | 368470 | 8653 | 368456 | 19 | 16 | 84.2105 | |
| ckim-vqsr | SNP | tv | HG002compoundhet | het | 99.1184 | 98.6518 | 99.5894 | 55.9836 | 4610 | 63 | 4608 | 19 | 12 | 63.1579 | |
| dgrover-gatk | INDEL | D16_PLUS | HG002complexvar | het | 98.2761 | 98.7353 | 97.8211 | 68.7119 | 1093 | 14 | 853 | 19 | 9 | 47.3684 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 98.6818 | 98.9247 | 98.4401 | 85.0991 | 1196 | 13 | 1199 | 19 | 3 | 15.7895 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e0 | het | 98.6907 | 98.8854 | 98.4968 | 85.5954 | 1242 | 14 | 1245 | 19 | 3 | 15.7895 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e1 | het | 98.7031 | 98.8959 | 98.5110 | 85.7047 | 1254 | 14 | 1257 | 19 | 3 | 15.7895 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.5210 | 93.9856 | 99.1970 | 53.9957 | 2344 | 150 | 2347 | 19 | 2 | 10.5263 | |
| ckim-isaac | SNP | * | map_l250_m1_e0 | * | 64.1591 | 47.3553 | 99.4475 | 90.4206 | 3420 | 3802 | 3420 | 19 | 3 | 15.7895 | |
| ckim-isaac | SNP | * | map_l250_m2_e0 | het | 67.0153 | 50.5776 | 99.2819 | 92.1809 | 2627 | 2567 | 2627 | 19 | 2 | 10.5263 | |
| ckim-isaac | SNP | * | map_l250_m2_e1 | het | 67.0943 | 50.6649 | 99.2926 | 92.2258 | 2667 | 2597 | 2667 | 19 | 2 | 10.5263 | |
| ckim-isaac | SNP | ti | map_l125_m0_e0 | * | 72.1772 | 56.5507 | 99.7374 | 74.7461 | 7217 | 5545 | 7217 | 19 | 4 | 21.0526 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.8744 | 97.2930 | 98.4628 | 79.3759 | 1222 | 34 | 1217 | 19 | 7 | 36.8421 | |
| ckim-vqsr | INDEL | * | map_l250_m0_e0 | * | 87.2093 | 96.1538 | 79.7872 | 98.4545 | 75 | 3 | 75 | 19 | 1 | 5.2632 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.8852 | 99.5902 | 96.2376 | 72.0686 | 486 | 2 | 486 | 19 | 18 | 94.7368 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m0_e0 | het | 94.2584 | 97.5248 | 91.2037 | 94.9907 | 197 | 5 | 197 | 19 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.2919 | 94.3909 | 98.2712 | 79.8126 | 1077 | 64 | 1080 | 19 | 17 | 89.4737 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.8621 | 98.2332 | 93.6027 | 69.8477 | 278 | 5 | 278 | 19 | 19 | 100.0000 | |