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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52251-52300 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5285 | 98.5118 | 96.5646 | 71.5859 | 5759 | 87 | 5706 | 203 | 191 | 94.0887 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.5285 | 98.5118 | 96.5646 | 71.5859 | 5759 | 87 | 5706 | 203 | 191 | 94.0887 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m2_e0 | * | 96.1977 | 95.8333 | 96.5649 | 87.7741 | 253 | 11 | 253 | 9 | 2 | 22.2222 | |
| ckim-gatk | SNP | tv | map_l100_m1_e0 | het | 91.3400 | 86.6511 | 96.5654 | 83.3110 | 13359 | 2058 | 13355 | 475 | 16 | 3.3684 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.0581 | 99.5974 | 96.5657 | 46.5037 | 7422 | 30 | 7395 | 263 | 9 | 3.4221 | |
| gduggal-snapfb | SNP | ti | map_l150_m1_e0 | * | 96.2042 | 95.8452 | 96.5660 | 76.1103 | 18893 | 819 | 18897 | 672 | 348 | 51.7857 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2262 | 95.8879 | 96.5669 | 62.8612 | 3078 | 132 | 3066 | 109 | 106 | 97.2477 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.2249 | 97.8914 | 96.5673 | 61.2235 | 6871 | 148 | 7033 | 250 | 97 | 38.8000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 90.2910 | 84.7806 | 96.5674 | 90.4279 | 3593 | 645 | 3601 | 128 | 18 | 14.0625 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.8994 | 99.2682 | 96.5678 | 63.0857 | 2713 | 20 | 2701 | 96 | 92 | 95.8333 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m2_e0 | * | 94.2020 | 91.9487 | 96.5686 | 87.1557 | 788 | 69 | 788 | 28 | 21 | 75.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.2544 | 100.0000 | 96.5686 | 43.8017 | 197 | 0 | 197 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | * | map_l250_m2_e0 | het | 95.1691 | 93.8095 | 96.5686 | 95.2536 | 197 | 13 | 197 | 7 | 1 | 14.2857 | |
| qzeng-custom | SNP | tv | map_l150_m1_e0 | * | 82.5382 | 72.0674 | 96.5687 | 86.5523 | 7864 | 3048 | 7852 | 279 | 236 | 84.5878 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m2_e0 | het | 96.2025 | 95.8386 | 96.5693 | 87.1089 | 760 | 33 | 760 | 27 | 3 | 11.1111 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.2458 | 97.9315 | 96.5697 | 82.2940 | 19174 | 405 | 19284 | 685 | 59 | 8.6131 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.2458 | 97.9315 | 96.5697 | 82.2940 | 19174 | 405 | 19284 | 685 | 59 | 8.6131 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.3721 | 98.1869 | 96.5706 | 61.2646 | 704 | 13 | 704 | 25 | 22 | 88.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.8883 | 93.2614 | 96.5730 | 77.2592 | 2505 | 181 | 2508 | 89 | 6 | 6.7416 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002complexvar | het | 93.2920 | 90.2256 | 96.5742 | 65.0712 | 600 | 65 | 592 | 21 | 7 | 33.3333 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.4720 | 98.3860 | 96.5748 | 48.1258 | 5974 | 98 | 8233 | 292 | 166 | 56.8493 | |
| jlack-gatk | INDEL | D16_PLUS | HG002complexvar | het | 97.0657 | 97.5610 | 96.5753 | 68.6359 | 1080 | 27 | 846 | 30 | 18 | 60.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7162 | 98.8842 | 96.5753 | 51.3333 | 709 | 8 | 705 | 25 | 23 | 92.0000 | |
| ckim-gatk | SNP | ti | map_l150_m0_e0 | het | 76.3401 | 63.1156 | 96.5755 | 93.3356 | 3217 | 1880 | 3215 | 114 | 18 | 15.7895 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002complexvar | homalt | 98.2186 | 99.9176 | 96.5764 | 55.7279 | 1213 | 1 | 1213 | 43 | 43 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.1113 | 93.6897 | 96.5766 | 79.4254 | 1069 | 72 | 1072 | 38 | 21 | 55.2632 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.3882 | 96.1994 | 96.5777 | 62.9694 | 3088 | 122 | 3076 | 109 | 106 | 97.2477 | |
| jlack-gatk | INDEL | D1_5 | HG002complexvar | hetalt | 93.7719 | 91.1243 | 96.5779 | 72.4607 | 1232 | 120 | 1270 | 45 | 42 | 93.3333 | |
| cchapple-custom | INDEL | I1_5 | map_l150_m2_e1 | * | 96.3108 | 96.0452 | 96.5779 | 89.6130 | 510 | 21 | 508 | 18 | 3 | 16.6667 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 97.1162 | 97.6582 | 96.5801 | 61.6655 | 1543 | 37 | 1525 | 54 | 6 | 11.1111 | |
| qzeng-custom | SNP | tv | map_l100_m0_e0 | * | 84.6327 | 75.3158 | 96.5801 | 84.0828 | 8348 | 2736 | 8331 | 295 | 249 | 84.4068 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 91.9411 | 87.7264 | 96.5812 | 72.9667 | 436 | 61 | 565 | 20 | 19 | 95.0000 | |
| qzeng-custom | SNP | * | map_l125_m1_e0 | het | 83.6399 | 73.7567 | 96.5816 | 86.1149 | 20941 | 7451 | 20766 | 735 | 611 | 83.1293 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.0244 | 95.4725 | 96.5827 | 67.7509 | 36186 | 1716 | 36120 | 1278 | 1242 | 97.1831 | |
| ckim-dragen | SNP | tv | map_l125_m1_e0 | het | 97.6861 | 98.8149 | 96.5827 | 77.3870 | 10006 | 120 | 10005 | 354 | 25 | 7.0622 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1504 | 99.7689 | 96.5836 | 55.8513 | 9499 | 22 | 9499 | 336 | 332 | 98.8095 | |
| hfeng-pmm1 | INDEL | * | map_l250_m2_e1 | het | 95.1923 | 93.8389 | 96.5854 | 95.3641 | 198 | 13 | 198 | 7 | 1 | 14.2857 | |
| jli-custom | INDEL | D1_5 | map_l150_m0_e0 | het | 97.2973 | 98.0198 | 96.5854 | 90.5790 | 198 | 4 | 198 | 7 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.8698 | 91.3024 | 96.5857 | 72.7788 | 6078 | 579 | 6167 | 218 | 97 | 44.4954 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.9537 | 99.3610 | 96.5858 | 46.1375 | 7308 | 47 | 7327 | 259 | 42 | 16.2162 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.2635 | 100.0000 | 96.5863 | 56.1233 | 481 | 0 | 481 | 17 | 13 | 76.4706 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m0_e0 | het | 96.0913 | 95.6007 | 96.5870 | 86.7899 | 565 | 26 | 566 | 20 | 2 | 10.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.2543 | 95.9220 | 96.5889 | 67.3888 | 541 | 23 | 538 | 19 | 9 | 47.3684 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.3339 | 98.0903 | 96.5891 | 65.8188 | 565 | 11 | 623 | 22 | 7 | 31.8182 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.3274 | 76.4173 | 96.5895 | 46.1939 | 2278 | 703 | 2294 | 81 | 62 | 76.5432 | |
| qzeng-custom | SNP | ti | map_l125_m1_e0 | het | 82.7364 | 72.3585 | 96.5897 | 86.1572 | 13217 | 5049 | 13170 | 465 | 385 | 82.7957 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.5207 | 98.4691 | 96.5904 | 42.5528 | 3602 | 56 | 6799 | 240 | 41 | 17.0833 | |
| qzeng-custom | SNP | tv | map_l125_m2_e0 | het | 85.5513 | 76.7765 | 96.5908 | 86.8303 | 8017 | 2425 | 8018 | 283 | 230 | 81.2721 | |
| qzeng-custom | INDEL | I1_5 | map_l150_m1_e0 | het | 76.1696 | 62.8763 | 96.5909 | 95.0884 | 188 | 111 | 255 | 9 | 6 | 66.6667 | |
| jlack-gatk | SNP | ti | tech_badpromoters | * | 98.2659 | 100.0000 | 96.5909 | 46.0123 | 85 | 0 | 85 | 3 | 0 | 0.0000 | |