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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13301-13350 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | SNP | ti | map_l150_m2_e1 | het | 98.4895 | 98.7092 | 98.2707 | 77.9738 | 12847 | 168 | 12843 | 226 | 3 | 1.3274 | |
| jlack-gatk | SNP | * | map_l250_m2_e1 | * | 93.5343 | 97.8966 | 89.5442 | 92.9358 | 7819 | 168 | 7819 | 913 | 69 | 7.5575 | |
| gduggal-snapvard | SNP | tv | map_l150_m2_e0 | homalt | 97.7892 | 95.8854 | 99.7701 | 73.2819 | 3915 | 168 | 3906 | 9 | 7 | 77.7778 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 53.8527 | 45.9807 | 64.9770 | 74.1667 | 143 | 168 | 141 | 76 | 67 | 88.1579 | |
| ghariani-varprowl | SNP | ti | map_l150_m1_e0 | het | 97.2077 | 98.6419 | 95.8147 | 81.4139 | 12202 | 168 | 12202 | 533 | 123 | 23.0769 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e1 | * | 83.7200 | 78.4062 | 89.8065 | 94.3591 | 610 | 168 | 696 | 79 | 18 | 22.7848 | |
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 168 | 0 | 0 | 0 | |||
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 27.3743 | 59.8655 | 0 | 168 | 49 | 130 | 40 | 30.7692 | |
| cchapple-custom | INDEL | I6_15 | HG002complexvar | * | 97.5496 | 96.4942 | 98.6284 | 54.8042 | 4624 | 168 | 4746 | 66 | 60 | 90.9091 | |
| cchapple-custom | SNP | tv | map_l150_m0_e0 | * | 95.4922 | 95.9751 | 95.0142 | 82.7299 | 4006 | 168 | 4002 | 210 | 43 | 20.4762 | |
| ckim-dragen | SNP | tv | map_siren | het | 98.4766 | 99.4128 | 97.5580 | 65.5354 | 28441 | 168 | 28444 | 712 | 52 | 7.3034 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2992 | 97.3060 | 99.3129 | 66.5408 | 6068 | 168 | 6071 | 42 | 21 | 50.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.1862 | 76.5690 | 98.5663 | 43.2350 | 549 | 168 | 550 | 8 | 5 | 62.5000 | |
| ckim-isaac | INDEL | D1_5 | map_l150_m2_e0 | het | 79.9092 | 67.3152 | 98.3003 | 91.4899 | 346 | 168 | 347 | 6 | 2 | 33.3333 | |
| ckim-vqsr | INDEL | I16_PLUS | * | hetalt | 95.6650 | 91.9924 | 99.6430 | 54.9403 | 1930 | 168 | 1954 | 7 | 6 | 85.7143 | |
| ckim-vqsr | INDEL | * | * | homalt | 99.5675 | 99.8658 | 99.2711 | 58.9429 | 125004 | 168 | 125017 | 918 | 901 | 98.1481 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.0142 | 90.8795 | 95.2517 | 63.6364 | 1674 | 168 | 1665 | 83 | 41 | 49.3976 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.1627 | 97.3832 | 96.9432 | 73.2443 | 6252 | 168 | 6216 | 196 | 67 | 34.1837 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.7295 | 95.5848 | 99.9727 | 30.0745 | 3637 | 168 | 3661 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.1627 | 97.3832 | 96.9432 | 73.2443 | 6252 | 168 | 6216 | 196 | 67 | 34.1837 | |
| egarrison-hhga | SNP | * | map_l150_m0_e0 | het | 98.7297 | 97.8841 | 99.5900 | 80.6088 | 7772 | 168 | 7772 | 32 | 11 | 34.3750 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.0894 | 75.5459 | 97.3929 | 69.1734 | 519 | 168 | 523 | 14 | 12 | 85.7143 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 86.2568 | 87.6742 | 84.8845 | 71.5339 | 1195 | 168 | 1213 | 216 | 204 | 94.4444 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5319 | 99.4945 | 99.5693 | 75.4597 | 33068 | 168 | 33062 | 143 | 107 | 74.8252 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.8530 | 86.9868 | 99.5675 | 29.4261 | 1123 | 168 | 1151 | 5 | 5 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 89.8810 | 81.7985 | 99.7358 | 39.7772 | 755 | 168 | 755 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.1852 | 76.5690 | 98.5637 | 61.2117 | 549 | 168 | 549 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | SNP | ti | * | homalt | 99.9867 | 99.9791 | 99.9944 | 15.8584 | 802870 | 168 | 802861 | 45 | 41 | 91.1111 | |
| bgallagher-sentieon | SNP | ti | map_l125_m1_e0 | * | 99.3257 | 99.4273 | 99.2243 | 71.0550 | 29167 | 168 | 29163 | 228 | 42 | 18.4211 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9663 | 95.1890 | 98.8113 | 52.9502 | 3324 | 168 | 3325 | 40 | 33 | 82.5000 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 15.2866 | 9.6774 | 36.3636 | 52.5862 | 18 | 168 | 20 | 35 | 30 | 85.7143 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e1 | * | 83.4613 | 85.4797 | 81.5359 | 87.6226 | 989 | 168 | 998 | 226 | 83 | 36.7257 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e0 | * | 83.4201 | 85.3893 | 81.5397 | 87.6090 | 976 | 167 | 985 | 223 | 82 | 36.7713 | |
| asubramanian-gatk | INDEL | D6_15 | * | het | 98.3985 | 98.5594 | 98.2382 | 63.4201 | 11425 | 167 | 11375 | 204 | 176 | 86.2745 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.1238 | 98.4538 | 99.8029 | 79.4946 | 10634 | 167 | 10634 | 21 | 12 | 57.1429 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 89.3091 | 91.3606 | 87.3477 | 63.4839 | 1766 | 167 | 1864 | 270 | 137 | 50.7407 | |
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.5952 | 0.0000 | 0.0000 | 1 | 167 | 0 | 0 | 0 | ||
| 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 | |
| raldana-dualsentieon | SNP | ti | map_l150_m1_e0 | het | 98.4666 | 98.6500 | 98.2839 | 76.4844 | 12203 | 167 | 12199 | 213 | 2 | 0.9390 | |
| rpoplin-dv42 | SNP | * | HG002complexvar | homalt | 99.9511 | 99.9421 | 99.9601 | 19.9304 | 288407 | 167 | 288378 | 115 | 109 | 94.7826 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 89.7357 | 81.3824 | 100.0000 | 40.5910 | 730 | 167 | 764 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 79.5092 | 65.9878 | 100.0000 | 28.6008 | 324 | 167 | 347 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | map_l100_m0_e0 | het | 99.0069 | 99.2124 | 98.8022 | 73.2241 | 21038 | 167 | 21034 | 255 | 23 | 9.0196 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.0849 | 87.0643 | 100.0000 | 31.6290 | 1124 | 167 | 1150 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I1_5 | HG002complexvar | het | 99.4756 | 99.0819 | 99.8724 | 57.6818 | 18022 | 167 | 18002 | 23 | 11 | 47.8261 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.5801 | 93.4226 | 99.9585 | 35.8626 | 2372 | 167 | 2408 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m2_e1 | het | 64.8655 | 67.1260 | 62.7523 | 89.2822 | 341 | 167 | 342 | 203 | 175 | 86.2069 | |
| ckim-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 94.2299 | 92.2072 | 96.3432 | 52.0122 | 1976 | 167 | 1976 | 75 | 75 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m2_e1 | * | 66.1355 | 49.8498 | 98.2249 | 97.1927 | 166 | 167 | 166 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6831 | 93.6838 | 99.8808 | 36.3590 | 2477 | 167 | 2514 | 3 | 3 | 100.0000 | |