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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53151-53200 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | ti | map_l250_m0_e0 | het | 90.4950 | 97.8587 | 84.1621 | 96.2262 | 914 | 20 | 914 | 172 | 18 | 10.4651 | |
| gduggal-snapvard | INDEL | C1_5 | map_l100_m2_e1 | * | 0.0000 | 0.0000 | 48.1928 | 95.6316 | 0 | 0 | 80 | 86 | 9 | 10.4651 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0957 | 98.9522 | 99.2395 | 65.0592 | 27388 | 290 | 27403 | 210 | 22 | 10.4762 | |
| jmaeng-gatk | INDEL | * | map_l125_m1_e0 | * | 96.6159 | 98.1016 | 95.1746 | 90.8498 | 2067 | 40 | 2071 | 105 | 11 | 10.4762 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m0_e0 | * | 97.1053 | 95.5214 | 98.7426 | 78.1490 | 1493 | 70 | 1492 | 19 | 2 | 10.5263 | |
| jmaeng-gatk | SNP | ti | map_l250_m0_e0 | * | 64.0900 | 47.8102 | 97.1810 | 98.0371 | 655 | 715 | 655 | 19 | 2 | 10.5263 | |
| jmaeng-gatk | SNP | ti | map_l250_m0_e0 | het | 64.8227 | 48.9293 | 96.0084 | 98.4090 | 457 | 477 | 457 | 19 | 2 | 10.5263 | |
| jpowers-varprowl | SNP | * | func_cds | * | 99.3809 | 99.4931 | 99.2689 | 29.1793 | 18058 | 92 | 18058 | 133 | 14 | 10.5263 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 32.1716 | 22.5989 | 55.8140 | 74.4554 | 80 | 274 | 72 | 57 | 6 | 10.5263 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 20.2653 | 12.1269 | 61.6162 | 73.8786 | 65 | 471 | 61 | 38 | 4 | 10.5263 | |
| gduggal-snapplat | INDEL | I6_15 | segdup | * | 42.6472 | 30.2857 | 72.0588 | 94.2761 | 53 | 122 | 49 | 19 | 2 | 10.5263 | |
| 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-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.7990 | 98.4375 | 95.2141 | 86.5241 | 378 | 6 | 378 | 19 | 2 | 10.5263 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 84.9421 | 93.7500 | 77.6471 | 53.8043 | 15 | 1 | 66 | 19 | 2 | 10.5263 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.6267 | 97.7614 | 99.5075 | 53.2307 | 3843 | 88 | 3839 | 19 | 2 | 10.5263 | |
| raldana-dualsentieon | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.5255 | 97.4811 | 99.5925 | 63.6357 | 4644 | 120 | 4644 | 19 | 2 | 10.5263 | |
| gduggal-bwaplat | SNP | ti | func_cds | * | 99.4984 | 99.2747 | 99.7231 | 31.1374 | 13687 | 100 | 13687 | 38 | 4 | 10.5263 | |
| gduggal-bwaplat | SNP | ti | func_cds | het | 99.4112 | 99.2709 | 99.5519 | 36.3268 | 8442 | 62 | 8442 | 38 | 4 | 10.5263 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.8110 | 97.2305 | 94.4322 | 69.1595 | 1299 | 37 | 1289 | 76 | 8 | 10.5263 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.2250 | 97.0760 | 91.5367 | 74.6113 | 830 | 25 | 822 | 76 | 8 | 10.5263 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e0 | het | 91.0865 | 87.4204 | 95.0735 | 88.4658 | 1098 | 158 | 1100 | 57 | 6 | 10.5263 | |
| bgallagher-sentieon | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6672 | 99.8841 | 99.4512 | 37.3053 | 3446 | 4 | 3443 | 19 | 2 | 10.5263 | |
| bgallagher-sentieon | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5336 | 99.9532 | 99.1175 | 38.8352 | 2137 | 1 | 2134 | 19 | 2 | 10.5263 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m0_e0 | het | 97.9106 | 98.9848 | 96.8595 | 86.1143 | 585 | 6 | 586 | 19 | 2 | 10.5263 | |
| asubramanian-gatk | INDEL | * | segdup | het | 98.2193 | 97.7490 | 98.6942 | 95.9225 | 1433 | 33 | 1436 | 19 | 2 | 10.5263 | |
| hfeng-pmm3 | INDEL | * | map_siren | het | 98.9897 | 98.8243 | 99.1556 | 80.3605 | 4455 | 53 | 4462 | 38 | 4 | 10.5263 | |
| 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_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 | |
| jmaeng-gatk | SNP | ti | map_l150_m2_e1 | het | 85.3846 | 76.2889 | 96.9428 | 90.1640 | 9929 | 3086 | 9925 | 313 | 33 | 10.5431 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | het | 92.9104 | 88.4076 | 97.8964 | 81.4552 | 27371 | 3589 | 27364 | 588 | 62 | 10.5442 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 75.2099 | 92.3698 | 63.4269 | 72.4538 | 1259 | 104 | 1266 | 730 | 77 | 10.5479 | |
| hfeng-pmm2 | SNP | tv | map_l100_m0_e0 | het | 98.8749 | 99.1831 | 98.5687 | 74.1359 | 7163 | 59 | 7162 | 104 | 11 | 10.5769 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 89.2479 | 85.0979 | 93.8235 | 76.4116 | 5739 | 1005 | 5742 | 378 | 40 | 10.5820 | |
| gduggal-snapvard | INDEL | C1_5 | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 40.5594 | 95.7390 | 0 | 0 | 58 | 85 | 9 | 10.5882 | |
| ghariani-varprowl | SNP | ti | func_cds | * | 99.6201 | 99.8549 | 99.3864 | 28.0976 | 13767 | 20 | 13767 | 85 | 9 | 10.5882 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e1 | het | 78.1655 | 88.8889 | 69.7509 | 87.5883 | 120 | 15 | 196 | 85 | 9 | 10.5882 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m0_e0 | * | 90.7857 | 97.5806 | 84.8754 | 90.3137 | 484 | 12 | 477 | 85 | 9 | 10.5882 | |
| hfeng-pmm2 | SNP | * | map_l150_m0_e0 | * | 98.8358 | 99.1523 | 98.5214 | 81.5215 | 11930 | 102 | 11927 | 179 | 19 | 10.6145 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.7473 | 99.3571 | 94.2711 | 57.1736 | 10663 | 69 | 10696 | 650 | 69 | 10.6154 | |
| ckim-gatk | SNP | ti | map_l100_m2_e0 | het | 92.8437 | 88.2960 | 97.8852 | 81.4673 | 27038 | 3584 | 27031 | 584 | 62 | 10.6164 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e1 | * | 77.5442 | 85.8182 | 70.7254 | 85.8712 | 236 | 39 | 273 | 113 | 12 | 10.6195 | |
| jmaeng-gatk | SNP | ti | map_l100_m1_e0 | * | 89.7569 | 82.4247 | 98.5209 | 77.3729 | 39507 | 8424 | 39500 | 593 | 63 | 10.6239 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.2189 | 98.4978 | 90.2963 | 84.2175 | 6557 | 100 | 6216 | 668 | 71 | 10.6287 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.7947 | 99.0383 | 98.5524 | 55.6705 | 16271 | 158 | 31384 | 461 | 49 | 10.6291 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.5179 | 97.5818 | 93.5395 | 36.9311 | 686 | 17 | 1361 | 94 | 10 | 10.6383 | |
| raldana-dualsentieon | INDEL | * | map_siren | het | 98.4968 | 98.0479 | 98.9497 | 80.0579 | 4420 | 88 | 4428 | 47 | 5 | 10.6383 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.5418 | 98.5606 | 89.0094 | 85.1964 | 4177 | 61 | 4187 | 517 | 55 | 10.6383 | |