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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63901-63950 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 91.9540 | 97.5610 | 86.9565 | 88.1748 | 40 | 1 | 40 | 6 | 6 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 98.7654 | 97.5610 | 100.0000 | 91.7355 | 40 | 1 | 40 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | map_l150_m0_e0 | homalt | 97.5610 | 97.5610 | 97.5610 | 91.6327 | 160 | 4 | 160 | 4 | 3 | 75.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4857 | 97.5614 | 99.4277 | 64.2143 | 17723 | 443 | 17720 | 102 | 87 | 85.2941 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4857 | 97.5614 | 99.4277 | 64.2143 | 17723 | 443 | 17720 | 102 | 87 | 85.2941 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 91.4497 | 97.5621 | 86.0581 | 72.6726 | 2121 | 53 | 2074 | 336 | 8 | 2.3810 | |
| gduggal-bwavard | SNP | ti | map_l150_m2_e0 | * | 95.3841 | 97.5624 | 93.3010 | 83.0334 | 20012 | 500 | 19833 | 1424 | 93 | 6.5309 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.0177 | 97.5624 | 88.8776 | 88.4848 | 1721 | 43 | 1742 | 218 | 16 | 7.3395 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.7242 | 97.5630 | 97.8859 | 54.6627 | 24741 | 618 | 24632 | 532 | 424 | 79.6992 | |
| astatham-gatk | SNP | ti | HG002complexvar | het | 98.7599 | 97.5636 | 99.9860 | 17.3084 | 307097 | 7669 | 307042 | 43 | 17 | 39.5349 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.1810 | 97.5637 | 87.3613 | 59.2270 | 17740 | 443 | 17557 | 2540 | 107 | 4.2126 | |
| jlack-gatk | SNP | * | map_l250_m1_e0 | homalt | 98.5442 | 97.5639 | 99.5443 | 85.9993 | 2403 | 60 | 2403 | 11 | 8 | 72.7273 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e0 | homalt | 98.6803 | 97.5639 | 99.8226 | 73.2845 | 11414 | 285 | 11251 | 20 | 15 | 75.0000 | |
| gduggal-bwaplat | SNP | tv | * | het | 98.5255 | 97.5640 | 99.5062 | 36.2003 | 577282 | 14414 | 577577 | 2866 | 351 | 12.2470 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.2021 | 97.5649 | 98.8477 | 61.4163 | 1202 | 30 | 1201 | 14 | 12 | 85.7143 | |
| astatham-gatk | INDEL | D16_PLUS | HG002complexvar | * | 97.6735 | 97.5654 | 97.7819 | 66.9248 | 1603 | 40 | 1587 | 36 | 28 | 77.7778 | |
| ltrigg-rtg1 | SNP | ti | HG002compoundhet | homalt | 98.7135 | 97.5656 | 99.8888 | 29.2249 | 7214 | 180 | 7187 | 8 | 7 | 87.5000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.2646 | 97.5659 | 98.9733 | 55.4437 | 481 | 12 | 482 | 5 | 4 | 80.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.4653 | 97.5659 | 99.3814 | 54.5880 | 481 | 12 | 482 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m0_e0 | * | 97.7365 | 97.5666 | 97.9070 | 84.8485 | 842 | 21 | 842 | 18 | 4 | 22.2222 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 88.4778 | 97.5667 | 80.9379 | 76.0931 | 2927 | 73 | 2934 | 691 | 651 | 94.2113 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.7685 | 97.5669 | 100.0000 | 70.8696 | 401 | 10 | 402 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | * | het | 98.2130 | 97.5673 | 98.8673 | 58.6531 | 11310 | 282 | 11260 | 129 | 115 | 89.1473 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.6587 | 97.5693 | 70.2096 | 85.8214 | 8911 | 222 | 8977 | 3809 | 26 | 0.6826 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 81.6587 | 97.5693 | 70.2096 | 85.8214 | 8911 | 222 | 8977 | 3809 | 26 | 0.6826 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.6831 | 97.5694 | 99.8224 | 66.3479 | 562 | 14 | 562 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | SNP | * | map_l150_m1_e0 | homalt | 98.6799 | 97.5694 | 99.8159 | 71.2383 | 10999 | 274 | 10841 | 20 | 15 | 75.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.7701 | 97.5701 | 100.0000 | 73.5650 | 522 | 13 | 525 | 0 | 0 | ||
| egarrison-hhga | SNP | tv | map_l250_m2_e0 | * | 98.5111 | 97.5711 | 99.4694 | 87.5099 | 2812 | 70 | 2812 | 15 | 7 | 46.6667 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.7666 | 97.5737 | 37.1070 | 80.0383 | 6716 | 167 | 6880 | 11661 | 159 | 1.3635 | |
| gduggal-bwavard | SNP | * | segdup | * | 98.3638 | 97.5737 | 99.1668 | 93.3246 | 27386 | 681 | 27135 | 228 | 70 | 30.7018 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9984 | 97.5741 | 98.4263 | 73.4018 | 724 | 18 | 688 | 11 | 5 | 45.4545 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9298 | 97.5741 | 98.2882 | 73.1623 | 724 | 18 | 689 | 12 | 6 | 50.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9984 | 97.5741 | 98.4263 | 73.5027 | 724 | 18 | 688 | 11 | 5 | 45.4545 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.7625 | 97.5758 | 95.9627 | 75.9522 | 322 | 8 | 309 | 13 | 7 | 53.8462 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.5758 | 97.5758 | 97.5758 | 91.1812 | 161 | 4 | 161 | 4 | 2 | 50.0000 | |
| ckim-dragen | SNP | * | map_l250_m1_e0 | * | 97.2004 | 97.5768 | 96.8269 | 89.0554 | 7047 | 175 | 7049 | 231 | 29 | 12.5541 | |
| gduggal-bwavard | SNP | ti | map_l150_m2_e1 | * | 95.4042 | 97.5776 | 93.3256 | 83.0965 | 20221 | 502 | 20037 | 1433 | 94 | 6.5597 | |
| gduggal-bwavard | SNP | * | map_l100_m2_e1 | het | 95.3077 | 97.5777 | 93.1409 | 79.2994 | 45762 | 1136 | 45178 | 3327 | 221 | 6.6426 | |
| asubramanian-gatk | INDEL | D16_PLUS | HG002complexvar | homalt | 97.7470 | 97.5779 | 97.9167 | 76.2963 | 282 | 7 | 282 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m0_e0 | * | 97.4141 | 97.5779 | 97.2509 | 89.7535 | 282 | 7 | 283 | 8 | 1 | 12.5000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.9862 | 97.5782 | 92.5283 | 63.5798 | 14263 | 354 | 14130 | 1141 | 1110 | 97.2831 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.4995 | 97.5791 | 95.4436 | 69.9221 | 1975 | 49 | 1990 | 95 | 2 | 2.1053 | |
| mlin-fermikit | INDEL | D1_5 | * | het | 97.6071 | 97.5792 | 97.6350 | 51.6497 | 85454 | 2120 | 85333 | 2067 | 1958 | 94.7267 | |
| rpoplin-dv42 | INDEL | * | map_l125_m1_e0 | * | 98.0229 | 97.5795 | 98.4704 | 98.6389 | 2056 | 51 | 2060 | 32 | 13 | 40.6250 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.3740 | 97.5806 | 99.1803 | 86.8888 | 242 | 6 | 242 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.5752 | 97.5806 | 99.5902 | 82.7562 | 242 | 6 | 243 | 1 | 1 | 100.0000 | |
| cchapple-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.1287 | 97.5806 | 98.6829 | 71.9841 | 968 | 24 | 974 | 13 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.1888 | 97.5806 | 96.8000 | 90.9157 | 121 | 3 | 121 | 4 | 2 | 50.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.9773 | 97.5806 | 98.3773 | 68.8271 | 968 | 24 | 970 | 16 | 5 | 31.2500 | |