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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13051-13100 / 86044 show all | |||||||||||||||
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 91.0644 | 85.9330 | 96.8475 | 84.2543 | 2077 | 340 | 2089 | 68 | 28 | 41.1765 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 80.0119 | 68.8026 | 95.5844 | 61.7961 | 1471 | 667 | 1472 | 68 | 5 | 7.3529 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 28.9593 | 17.5631 | 82.4742 | 66.3778 | 320 | 1502 | 320 | 68 | 51 | 75.0000 | |
| gduggal-snapplat | SNP | * | func_cds | het | 99.3276 | 99.2653 | 99.3900 | 36.7079 | 11079 | 82 | 11079 | 68 | 4 | 5.8824 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 28.4562 | 16.8067 | 92.7350 | 41.3166 | 860 | 4257 | 868 | 68 | 64 | 94.1176 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 28.4211 | 61.3821 | 0 | 133 | 27 | 68 | 23 | 33.8235 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m2_e0 | * | 60.0321 | 64.1509 | 56.4103 | 82.6087 | 34 | 19 | 88 | 68 | 53 | 77.9412 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m2_e0 | het | 66.1017 | 86.6667 | 53.4247 | 82.5150 | 26 | 4 | 78 | 68 | 53 | 77.9412 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m2_e1 | * | 60.1890 | 64.1509 | 56.6879 | 82.9162 | 34 | 19 | 89 | 68 | 53 | 77.9412 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m2_e1 | het | 66.1017 | 86.6667 | 53.4247 | 82.9240 | 26 | 4 | 78 | 68 | 53 | 77.9412 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.1492 | 94.2273 | 98.1512 | 80.5335 | 3689 | 226 | 3610 | 68 | 32 | 47.0588 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_triTR_51to200 | het | 2.8571 | 100.0000 | 1.4493 | 62.7027 | 1 | 0 | 1 | 68 | 1 | 1.4706 | |
| gduggal-bwavard | INDEL | C6_15 | HG002complexvar | het | 83.1683 | 100.0000 | 71.1864 | 87.6634 | 4 | 0 | 168 | 68 | 30 | 44.1176 | |
| gduggal-bwavard | INDEL | D1_5 | map_l150_m0_e0 | het | 85.0446 | 99.0099 | 74.5318 | 93.3133 | 200 | 2 | 199 | 68 | 6 | 8.8235 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e0 | * | 99.0376 | 99.4409 | 98.6375 | 90.5192 | 4980 | 28 | 4923 | 68 | 6 | 8.8235 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.2638 | 96.1738 | 96.3539 | 73.1963 | 1483 | 59 | 1797 | 68 | 52 | 76.4706 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 53.6328 | 46.6667 | 63.0435 | 33.0909 | 21 | 24 | 116 | 68 | 67 | 98.5294 | |
| eyeh-varpipe | INDEL | I1_5 | HG002compoundhet | hetalt | 60.8513 | 43.9832 | 98.7067 | 61.4827 | 4916 | 6261 | 5190 | 68 | 65 | 95.5882 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 78.4458 | 66.0000 | 96.6764 | 83.1355 | 1980 | 1020 | 1978 | 68 | 17 | 25.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.1414 | 92.1902 | 94.1126 | 70.7669 | 1086 | 92 | 1087 | 68 | 66 | 97.0588 | |
| gduggal-bwavard | SNP | tv | HG002complexvar | homalt | 98.3914 | 96.9047 | 99.9244 | 20.9085 | 92167 | 2944 | 89912 | 68 | 35 | 51.4706 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 62.9766 | 49.2569 | 87.2897 | 84.9168 | 464 | 478 | 467 | 68 | 2 | 2.9412 | |
| gduggal-bwaplat | SNP | ti | map_l150_m1_e0 | * | 68.9590 | 52.8054 | 99.3512 | 89.9469 | 10409 | 9303 | 10413 | 68 | 24 | 35.2941 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.5109 | 97.6402 | 99.3972 | 56.5597 | 11213 | 271 | 11213 | 68 | 60 | 88.2353 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 84.8790 | 77.9848 | 93.1104 | 42.5160 | 921 | 260 | 919 | 68 | 68 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m2_e1 | het | 99.1170 | 98.7630 | 99.4736 | 76.1158 | 12854 | 161 | 12850 | 68 | 17 | 25.0000 | |
| hfeng-pmm2 | INDEL | * | map_l100_m2_e0 | * | 98.2981 | 98.4295 | 98.1671 | 85.2737 | 3635 | 58 | 3642 | 68 | 13 | 19.1176 | |
| hfeng-pmm2 | INDEL | * | map_l100_m2_e1 | * | 98.3131 | 98.4292 | 98.1972 | 85.3384 | 3697 | 59 | 3704 | 68 | 13 | 19.1176 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6624 | 99.7383 | 99.5867 | 60.0529 | 16386 | 43 | 16385 | 68 | 18 | 26.4706 | |
| hfeng-pmm3 | SNP | * | * | homalt | 99.9916 | 99.9889 | 99.9942 | 17.9575 | 1180030 | 131 | 1180013 | 68 | 45 | 66.1765 | |
| hfeng-pmm3 | SNP | * | map_l250_m1_e0 | * | 98.9535 | 98.8507 | 99.0565 | 88.1658 | 7139 | 83 | 7139 | 68 | 9 | 13.2353 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.8619 | 95.7143 | 94.0246 | 80.9444 | 1273 | 57 | 1070 | 68 | 57 | 83.8235 | |
| ckim-vqsr | INDEL | I16_PLUS | * | homalt | 97.7080 | 99.6797 | 95.8128 | 71.8495 | 1556 | 5 | 1556 | 68 | 67 | 98.5294 | |
| ckim-vqsr | INDEL | I6_15 | * | het | 99.0039 | 98.6943 | 99.3155 | 60.3259 | 9902 | 131 | 9866 | 68 | 49 | 72.0588 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e0 | het | 97.5246 | 97.9627 | 97.0903 | 84.4521 | 2260 | 47 | 2269 | 68 | 29 | 42.6471 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.7816 | 96.6527 | 91.0761 | 57.6667 | 693 | 24 | 694 | 68 | 49 | 72.0588 | |
| ckim-isaac | SNP | * | map_l125_m2_e0 | * | 73.7324 | 58.4787 | 99.7518 | 72.8403 | 27323 | 19400 | 27325 | 68 | 16 | 23.5294 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4712 | 96.1968 | 98.7798 | 51.8157 | 5514 | 218 | 5505 | 68 | 43 | 63.2353 | |
| egarrison-hhga | SNP | * | map_l150_m2_e0 | * | 99.3568 | 98.9326 | 99.7847 | 74.8691 | 31512 | 340 | 31512 | 68 | 32 | 47.0588 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m2_e1 | * | 99.1807 | 98.6394 | 99.7280 | 56.7507 | 24939 | 344 | 24934 | 68 | 5 | 7.3529 | |
| ndellapenna-hhga | SNP | * | map_l150_m2_e0 | het | 98.6606 | 97.6854 | 99.6554 | 74.6307 | 19667 | 466 | 19667 | 68 | 30 | 44.1176 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.8594 | 97.1731 | 80.1749 | 65.9384 | 275 | 8 | 275 | 68 | 62 | 91.1765 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.8902 | 95.7121 | 90.2299 | 74.0007 | 625 | 28 | 628 | 68 | 67 | 98.5294 | |
| mlin-fermikit | SNP | tv | map_l250_m0_e0 | * | 37.7799 | 25.3595 | 74.0458 | 82.9427 | 194 | 571 | 194 | 68 | 60 | 88.2353 | |
| mlin-fermikit | SNP | tv | segdup | het | 97.5120 | 96.3685 | 98.6829 | 87.0738 | 5095 | 192 | 5095 | 68 | 1 | 1.4706 | |
| ciseli-custom | INDEL | * | map_l250_m1_e0 | het | 57.5615 | 54.7368 | 60.6936 | 97.5902 | 104 | 86 | 105 | 68 | 32 | 47.0588 | |
| ckim-gatk | INDEL | * | map_l125_m0_e0 | het | 93.6867 | 98.2964 | 89.4900 | 93.6438 | 577 | 10 | 579 | 68 | 2 | 2.9412 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 95.0477 | 98.4576 | 91.8660 | 92.3764 | 766 | 12 | 768 | 68 | 6 | 8.8235 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 51.3139 | 90.2439 | 35.8491 | 90.7906 | 37 | 4 | 38 | 68 | 7 | 10.2941 | |
| ckim-dragen | INDEL | * | * | hetalt | 95.9597 | 92.4793 | 99.7124 | 57.0557 | 23339 | 1898 | 23575 | 68 | 68 | 100.0000 | |