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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13801-13850 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | tv | map_l250_m2_e1 | het | 72.9840 | 59.1858 | 95.1718 | 96.8842 | 1163 | 802 | 1163 | 59 | 1 | 1.6949 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7339 | 100.0000 | 78.1481 | 67.6259 | 211 | 0 | 211 | 59 | 58 | 98.3051 | |
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5118 | 99.8232 | 99.2024 | 37.2444 | 7342 | 13 | 7338 | 59 | 5 | 8.4746 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1334 | 94.7850 | 99.6011 | 59.6178 | 14613 | 804 | 14733 | 59 | 58 | 98.3051 | |
| hfeng-pmm2 | SNP | ti | * | homalt | 99.9915 | 99.9903 | 99.9927 | 16.7561 | 802960 | 78 | 802952 | 59 | 48 | 81.3559 | |
| hfeng-pmm3 | SNP | tv | map_l125_m1_e0 | het | 99.3576 | 99.2988 | 99.4165 | 70.9308 | 10055 | 71 | 10053 | 59 | 5 | 8.4746 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e0 | het | 99.3771 | 99.3201 | 99.4342 | 72.2814 | 10371 | 71 | 10369 | 59 | 5 | 8.4746 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e1 | het | 99.3837 | 99.3272 | 99.4402 | 72.3386 | 10482 | 71 | 10480 | 59 | 5 | 8.4746 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m0_e0 | * | 89.7284 | 97.9239 | 82.7988 | 93.2798 | 283 | 6 | 284 | 59 | 1 | 1.6949 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m0_e0 | het | 86.3303 | 98.0198 | 77.1318 | 93.8278 | 198 | 4 | 199 | 59 | 1 | 1.6949 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e0 | het | 98.5614 | 98.2672 | 98.8573 | 88.7531 | 5104 | 90 | 5104 | 59 | 11 | 18.6441 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e1 | het | 98.5612 | 98.2523 | 98.8721 | 88.8393 | 5172 | 92 | 5172 | 59 | 11 | 18.6441 | |
| hfeng-pmm1 | SNP | tv | map_l100_m1_e0 | * | 99.6055 | 99.4531 | 99.7584 | 64.1006 | 24367 | 134 | 24363 | 59 | 17 | 28.8136 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.8080 | 95.5101 | 98.1417 | 64.0023 | 3127 | 147 | 3116 | 59 | 57 | 96.6102 | |
| hfeng-pmm2 | INDEL | I6_15 | * | het | 98.7550 | 98.1162 | 99.4021 | 57.6463 | 9844 | 189 | 9809 | 59 | 39 | 66.1017 | |
| hfeng-pmm3 | SNP | ti | map_l150_m0_e0 | * | 99.2301 | 99.2113 | 99.2490 | 79.5379 | 7799 | 62 | 7797 | 59 | 6 | 10.1695 | |
| eyeh-varpipe | INDEL | C6_15 | HG002complexvar | * | 91.6784 | 100.0000 | 84.6354 | 83.7632 | 4 | 0 | 325 | 59 | 49 | 83.0508 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.5998 | 99.7544 | 99.4458 | 51.6487 | 10153 | 25 | 10587 | 59 | 58 | 98.3051 | |
| eyeh-varpipe | INDEL | I1_5 | map_siren | het | 97.1764 | 97.3825 | 96.9713 | 77.3988 | 1637 | 44 | 1889 | 59 | 41 | 69.4915 | |
| eyeh-varpipe | SNP | * | tech_badpromoters | * | 83.8356 | 100.0000 | 72.1698 | 67.3846 | 157 | 0 | 153 | 59 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | * | tech_badpromoters | het | 72.0379 | 100.0000 | 56.2963 | 72.9459 | 77 | 0 | 76 | 59 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | tv | map_l250_m2_e1 | het | 98.2749 | 99.5420 | 97.0396 | 91.1568 | 1956 | 9 | 1934 | 59 | 4 | 6.7797 | |
| gduggal-bwafb | INDEL | D1_5 | map_siren | * | 98.1690 | 98.0164 | 98.3220 | 81.5743 | 3459 | 70 | 3457 | 59 | 15 | 25.4237 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.4657 | 93.1034 | 95.8683 | 72.1692 | 1269 | 94 | 1369 | 59 | 47 | 79.6610 | |
| gduggal-bwaplat | INDEL | D16_PLUS | * | het | 80.5941 | 68.7559 | 97.3566 | 80.9524 | 2172 | 987 | 2173 | 59 | 43 | 72.8814 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | homalt | 88.8329 | 83.9179 | 94.3595 | 65.4443 | 981 | 188 | 987 | 59 | 53 | 89.8305 | |
| gduggal-bwavard | INDEL | D1_5 | map_l250_m1_e0 | * | 83.0171 | 95.9064 | 73.1818 | 95.4081 | 164 | 7 | 161 | 59 | 4 | 6.7797 | |
| gduggal-bwavard | INDEL | D1_5 | map_l250_m1_e0 | het | 78.1362 | 98.1982 | 64.8810 | 95.9104 | 109 | 2 | 109 | 59 | 4 | 6.7797 | |
| gduggal-bwaplat | SNP | * | map_l125_m0_e0 | het | 67.0117 | 50.6238 | 99.0887 | 93.0436 | 6411 | 6253 | 6415 | 59 | 19 | 32.2034 | |
| gduggal-bwaplat | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.3459 | 90.0692 | 96.8700 | 86.2669 | 1823 | 201 | 1826 | 59 | 4 | 6.7797 | |
| gduggal-bwaplat | SNP | tv | segdup | het | 98.3560 | 97.8438 | 98.8736 | 96.0991 | 5173 | 114 | 5179 | 59 | 6 | 10.1695 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m2_e1 | homalt | 74.9478 | 66.4815 | 85.8852 | 77.4663 | 359 | 181 | 359 | 59 | 57 | 96.6102 | |
| mlin-fermikit | SNP | tv | map_l150_m2_e0 | het | 54.9832 | 38.2239 | 97.9130 | 71.6136 | 2772 | 4480 | 2768 | 59 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 86.3189 | 96.5217 | 78.0669 | 73.5497 | 222 | 8 | 210 | 59 | 5 | 8.4746 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m1_e0 | * | 99.1748 | 98.6001 | 99.7563 | 54.0248 | 24158 | 343 | 24152 | 59 | 5 | 8.4746 | |
| mlin-fermikit | INDEL | D16_PLUS | map_siren | * | 67.3567 | 71.3287 | 63.8037 | 92.7716 | 102 | 41 | 104 | 59 | 20 | 33.8983 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 75.1664 | 60.6286 | 98.8753 | 39.2261 | 5633 | 3658 | 5187 | 59 | 47 | 79.6610 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 75.1664 | 60.6286 | 98.8753 | 39.2261 | 5633 | 3658 | 5187 | 59 | 47 | 79.6610 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6068 | 96.9183 | 98.3051 | 69.3951 | 3428 | 109 | 3422 | 59 | 39 | 66.1017 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.9456 | 97.3101 | 98.5895 | 80.0705 | 4124 | 114 | 4124 | 59 | 15 | 25.4237 | |
| ndellapenna-hhga | SNP | ti | map_l100_m1_e0 | het | 99.0953 | 98.4002 | 99.8002 | 62.6312 | 29463 | 479 | 29465 | 59 | 24 | 40.6780 | |
| ndellapenna-hhga | SNP | tv | map_siren | het | 99.3169 | 98.8465 | 99.7918 | 55.1017 | 28279 | 330 | 28279 | 59 | 19 | 32.2034 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.2409 | 98.9242 | 97.5670 | 75.1766 | 2115 | 23 | 2366 | 59 | 11 | 18.6441 | |
| qzeng-custom | INDEL | I6_15 | map_l100_m0_e0 | * | 53.2753 | 57.5758 | 49.5726 | 84.7656 | 19 | 14 | 58 | 59 | 1 | 1.6949 | |
| qzeng-custom | SNP | tv | map_l250_m0_e0 | het | 74.5292 | 65.5594 | 86.3426 | 98.2078 | 375 | 197 | 373 | 59 | 42 | 71.1864 | |
| gduggal-snapvard | INDEL | I6_15 | segdup | * | 60.2107 | 55.4286 | 65.8960 | 90.9708 | 97 | 78 | 114 | 59 | 50 | 84.7458 | |
| gduggal-snapvard | INDEL | I6_15 | segdup | het | 71.6829 | 85.5422 | 61.6883 | 91.3966 | 71 | 12 | 95 | 59 | 50 | 84.7458 | |
| gduggal-snapvard | SNP | * | func_cds | het | 99.2494 | 99.0323 | 99.4675 | 33.3113 | 11053 | 108 | 11020 | 59 | 21 | 35.5932 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8156 | 98.5801 | 99.0522 | 46.3316 | 6179 | 89 | 6166 | 59 | 7 | 11.8644 | |
| ghariani-varprowl | INDEL | * | map_l250_m2_e0 | het | 86.0169 | 96.6667 | 77.4809 | 97.4752 | 203 | 7 | 203 | 59 | 10 | 16.9492 | |