PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14851-14900 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.9234 | 93.0786 | 98.9476 | 63.4393 | 4653 | 346 | 4607 | 49 | 36 | 73.4694 | |
| ltrigg-rtg1 | INDEL | D6_15 | * | hetalt | 96.1547 | 93.1490 | 99.3609 | 40.3300 | 7614 | 560 | 7618 | 49 | 49 | 100.0000 | |
| jpowers-varprowl | INDEL | * | map_l125_m0_e0 | * | 93.0500 | 91.8367 | 94.2957 | 90.4640 | 810 | 72 | 810 | 49 | 30 | 61.2245 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m0_e0 | * | 93.8918 | 93.5110 | 94.2757 | 85.2184 | 807 | 56 | 807 | 49 | 23 | 46.9388 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 94.7458 | 94.6281 | 94.8637 | 60.4149 | 916 | 52 | 905 | 49 | 36 | 73.4694 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 75.3120 | 84.4262 | 67.9739 | 56.5341 | 103 | 19 | 104 | 49 | 49 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m2_e0 | het | 98.7318 | 97.7485 | 99.7352 | 62.6803 | 18451 | 425 | 18453 | 49 | 7 | 14.2857 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m2_e1 | het | 98.7433 | 97.7681 | 99.7381 | 62.7777 | 18661 | 426 | 18663 | 49 | 7 | 14.2857 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.9971 | 99.4760 | 96.5614 | 59.6546 | 1329 | 7 | 1376 | 49 | 1 | 2.0408 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.9927 | 99.4152 | 94.6855 | 62.3980 | 850 | 5 | 873 | 49 | 1 | 2.0408 | |
| jli-custom | SNP | tv | segdup | het | 99.3872 | 99.6974 | 99.0789 | 90.9422 | 5271 | 16 | 5271 | 49 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4180 | 99.2798 | 99.5566 | 63.6361 | 11028 | 80 | 11002 | 49 | 18 | 36.7347 | |
| gduggal-snapfb | SNP | * | map_l150_m1_e0 | homalt | 97.1242 | 94.8195 | 99.5437 | 79.7473 | 10689 | 584 | 10689 | 49 | 20 | 40.8163 | |
| gduggal-snapfb | SNP | * | map_l150_m2_e0 | homalt | 97.2134 | 94.9739 | 99.5609 | 80.8017 | 11111 | 588 | 11111 | 49 | 20 | 40.8163 | |
| gduggal-snapfb | SNP | * | map_l150_m2_e1 | homalt | 97.2353 | 95.0114 | 99.5658 | 80.8094 | 11237 | 590 | 11237 | 49 | 20 | 40.8163 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 79.8224 | 95.4545 | 68.5897 | 91.7504 | 105 | 5 | 107 | 49 | 27 | 55.1020 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m1_e0 | het | 94.9153 | 96.4187 | 93.4579 | 83.5312 | 700 | 26 | 700 | 49 | 6 | 12.2449 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m2_e0 | het | 95.1644 | 96.5969 | 93.7738 | 84.6289 | 738 | 26 | 738 | 49 | 6 | 12.2449 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 43.0800 | 29.0909 | 82.9861 | 28.5360 | 96 | 234 | 239 | 49 | 49 | 100.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 60.8920 | 54.0284 | 69.7531 | 54.6218 | 114 | 97 | 113 | 49 | 49 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 11.5108 | 7.7670 | 22.2222 | 93.9481 | 16 | 190 | 14 | 49 | 4 | 8.1633 | |
| gduggal-snapvard | INDEL | D6_15 | segdup | * | 67.8956 | 65.9686 | 69.9387 | 92.8194 | 126 | 65 | 114 | 49 | 38 | 77.5510 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 23.0092 | 16.5049 | 37.9747 | 64.0909 | 34 | 172 | 30 | 49 | 32 | 65.3061 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 49.3293 | 70.3704 | 37.9747 | 63.2558 | 19 | 8 | 30 | 49 | 32 | 65.3061 | |
| gduggal-snapplat | SNP | ti | func_cds | * | 99.5243 | 99.4052 | 99.6437 | 28.8978 | 13705 | 82 | 13705 | 49 | 5 | 10.2041 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2112 | 93.3565 | 99.2459 | 50.4272 | 6450 | 459 | 6449 | 49 | 44 | 89.7959 | |
| raldana-dualsentieon | INDEL | I6_15 | HG002complexvar | * | 97.4043 | 95.9098 | 98.9460 | 56.6890 | 4596 | 196 | 4600 | 49 | 48 | 97.9592 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 92.5543 | 91.9137 | 93.2039 | 71.7808 | 682 | 60 | 672 | 49 | 46 | 93.8776 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.8149 | 89.8021 | 98.2032 | 50.1554 | 2677 | 304 | 2678 | 49 | 47 | 95.9184 | |
| rpoplin-dv42 | SNP | ti | HG002compoundhet | * | 99.6565 | 99.5938 | 99.7193 | 35.2092 | 17407 | 71 | 17405 | 49 | 42 | 85.7143 | |
| rpoplin-dv42 | SNP | ti | map_l250_m2_e1 | het | 98.3298 | 98.1510 | 98.5093 | 88.6573 | 3238 | 61 | 3238 | 49 | 29 | 59.1837 | |
| raldana-dualsentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3694 | 98.9198 | 99.8231 | 52.8249 | 27657 | 302 | 27656 | 49 | 9 | 18.3673 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m2_e0 | homalt | 78.2427 | 77.2727 | 79.2373 | 89.5806 | 187 | 55 | 187 | 49 | 40 | 81.6327 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m2_e1 | homalt | 78.5276 | 77.4194 | 79.6680 | 89.5354 | 192 | 56 | 192 | 49 | 40 | 81.6327 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 86.1694 | 89.8876 | 82.7465 | 54.2673 | 240 | 27 | 235 | 49 | 41 | 83.6735 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 38.9082 | 26.7241 | 71.5116 | 73.2919 | 124 | 340 | 123 | 49 | 41 | 83.6735 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.5724 | 99.2360 | 95.9638 | 73.1297 | 1169 | 9 | 1165 | 49 | 49 | 100.0000 | |
| ckim-dragen | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.7926 | 99.8634 | 99.7220 | 66.5121 | 17544 | 24 | 17576 | 49 | 13 | 26.5306 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.1377 | 92.8872 | 99.6239 | 30.9811 | 12785 | 979 | 12979 | 49 | 49 | 100.0000 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.1413 | 92.8877 | 99.6311 | 33.7242 | 13034 | 998 | 13234 | 49 | 49 | 100.0000 | |
| ckim-dragen | INDEL | * | map_l150_m2_e0 | het | 95.2851 | 95.9161 | 94.6623 | 92.0056 | 869 | 37 | 869 | 49 | 5 | 10.2041 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.6667 | 97.6378 | 71.6763 | 51.1299 | 124 | 3 | 124 | 49 | 47 | 95.9184 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.0342 | 91.9149 | 98.3726 | 47.9336 | 1296 | 114 | 2962 | 49 | 35 | 71.4286 | |
| ciseli-custom | INDEL | * | map_l125_m0_e0 | homalt | 64.5934 | 55.9859 | 76.3285 | 90.4255 | 159 | 125 | 158 | 49 | 35 | 71.4286 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 86.6087 | 82.5871 | 91.0420 | 67.8424 | 498 | 105 | 498 | 49 | 34 | 69.3878 | |
| ckim-isaac | SNP | * | map_l150_m1_e0 | * | 70.0877 | 54.0364 | 99.7046 | 76.2708 | 16540 | 14069 | 16541 | 49 | 12 | 24.4898 | |
| ckim-vqsr | INDEL | * | map_l150_m2_e0 | * | 96.2276 | 95.9517 | 96.5050 | 93.5044 | 1351 | 57 | 1353 | 49 | 6 | 12.2449 | |
| dgrover-gatk | INDEL | I1_5 | HG002complexvar | * | 99.7285 | 99.6044 | 99.8530 | 57.2674 | 33231 | 132 | 33279 | 49 | 38 | 77.5510 | |
| dgrover-gatk | INDEL | I6_15 | HG002compoundhet | het | 86.2668 | 98.0769 | 76.9953 | 84.5091 | 204 | 4 | 164 | 49 | 48 | 97.9592 | |
| dgrover-gatk | SNP | * | map_l250_m0_e0 | * | 97.6090 | 97.5176 | 97.7006 | 93.8613 | 2082 | 53 | 2082 | 49 | 10 | 20.4082 | |