PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66251-66300 / 86044 show all | |||||||||||||||
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.5756 | 96.6493 | 98.5199 | 55.4070 | 2596 | 90 | 2596 | 39 | 1 | 2.5641 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.5758 | 97.5758 | 97.5758 | 91.1812 | 161 | 4 | 161 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.5761 | 98.2544 | 96.9072 | 81.0824 | 394 | 7 | 376 | 12 | 5 | 41.6667 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.5765 | 99.1813 | 96.0227 | 68.9046 | 848 | 7 | 845 | 35 | 2 | 5.7143 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.5768 | 95.8462 | 99.3711 | 22.4390 | 623 | 27 | 632 | 4 | 4 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.5769 | 96.6102 | 98.5632 | 70.4835 | 342 | 12 | 343 | 5 | 5 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m1_e0 | * | 97.5776 | 96.4152 | 98.7683 | 82.4696 | 1291 | 48 | 1283 | 16 | 5 | 31.2500 | |
| hfeng-pmm1 | INDEL | D16_PLUS | * | * | 97.5778 | 96.8750 | 98.2909 | 66.6166 | 6572 | 212 | 6556 | 114 | 68 | 59.6491 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m0_e0 | het | 97.5785 | 97.5460 | 97.6109 | 82.4235 | 318 | 8 | 572 | 14 | 8 | 57.1429 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5789 | 95.9353 | 99.2797 | 63.8316 | 5098 | 216 | 5100 | 37 | 30 | 81.0811 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l150_m1_e0 | het | 97.5790 | 96.0581 | 99.1489 | 78.9615 | 463 | 19 | 466 | 4 | 0 | 0.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.5795 | 95.7485 | 99.4819 | 26.9554 | 6869 | 305 | 6912 | 36 | 34 | 94.4444 | |
| hfeng-pmm1 | INDEL | * | map_l150_m2_e1 | * | 97.5801 | 96.5949 | 98.5856 | 88.8230 | 1390 | 49 | 1394 | 20 | 4 | 20.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m0_e0 | het | 97.5803 | 98.8156 | 96.3756 | 85.7277 | 584 | 7 | 585 | 22 | 1 | 4.5455 | |
| mlin-fermikit | INDEL | * | * | homalt | 97.5803 | 98.1713 | 96.9963 | 56.8203 | 122883 | 2289 | 122774 | 3802 | 3715 | 97.7117 | |
| dgrover-gatk | INDEL | D1_5 | map_l250_m2_e1 | het | 97.5806 | 99.1803 | 96.0317 | 96.3415 | 121 | 1 | 121 | 5 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l250_m2_e1 | het | 97.5806 | 99.1803 | 96.0317 | 94.7522 | 121 | 1 | 121 | 5 | 1 | 20.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l150_m2_e0 | * | 97.5824 | 96.0227 | 99.1935 | 85.3475 | 1352 | 56 | 1353 | 11 | 1 | 9.0909 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5826 | 97.4026 | 97.7633 | 76.4020 | 2100 | 56 | 2098 | 48 | 23 | 47.9167 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.5832 | 95.9437 | 99.2798 | 56.3557 | 30134 | 1274 | 30188 | 219 | 93 | 42.4658 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.5832 | 95.9437 | 99.2798 | 56.3557 | 30134 | 1274 | 30188 | 219 | 93 | 42.4658 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5833 | 96.4750 | 98.7173 | 74.8085 | 2080 | 76 | 2078 | 27 | 9 | 33.3333 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5845 | 96.1905 | 99.0196 | 62.5917 | 606 | 24 | 606 | 6 | 4 | 66.6667 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | * | 97.5846 | 96.7748 | 98.4081 | 58.8477 | 5131 | 171 | 5131 | 83 | 77 | 92.7711 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.5847 | 95.9538 | 99.2721 | 31.4921 | 1660 | 70 | 1773 | 13 | 12 | 92.3077 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m0_e0 | homalt | 97.5848 | 95.9459 | 99.2806 | 83.0694 | 142 | 6 | 138 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | SNP | tv | map_l100_m2_e1 | * | 97.5848 | 98.0422 | 97.1318 | 71.7053 | 24788 | 495 | 24789 | 732 | 232 | 31.6940 | |
| gduggal-bwafb | INDEL | D1_5 | map_l125_m0_e0 | * | 97.5855 | 97.7823 | 97.3896 | 88.3263 | 485 | 11 | 485 | 13 | 1 | 7.6923 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.5860 | 95.8996 | 99.3328 | 33.9394 | 1146 | 49 | 1191 | 8 | 8 | 100.0000 | |
| jli-custom | INDEL | D1_5 | map_l150_m0_e0 | * | 97.5862 | 97.9239 | 97.2509 | 90.5458 | 283 | 6 | 283 | 8 | 1 | 12.5000 | |
| jpowers-varprowl | SNP | * | map_l125_m2_e0 | * | 97.5865 | 97.1834 | 97.9930 | 76.8491 | 45407 | 1316 | 45407 | 930 | 284 | 30.5376 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.5866 | 96.7742 | 98.4127 | 90.1946 | 120 | 4 | 124 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | * | map_l125_m0_e0 | * | 97.5866 | 98.4127 | 96.7742 | 90.0652 | 868 | 14 | 870 | 29 | 6 | 20.6897 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5871 | 95.8024 | 99.4396 | 50.7631 | 5683 | 249 | 5678 | 32 | 30 | 93.7500 | |
| hfeng-pmm1 | INDEL | * | map_l150_m1_e0 | * | 97.5871 | 96.6368 | 98.5562 | 87.8193 | 1293 | 45 | 1297 | 19 | 4 | 21.0526 | |
| rpoplin-dv42 | INDEL | * | map_l125_m1_e0 | het | 97.5874 | 96.8539 | 98.3321 | 86.1464 | 1293 | 42 | 1297 | 22 | 7 | 31.8182 | |
| bgallagher-sentieon | INDEL | D16_PLUS | * | het | 97.5876 | 99.3036 | 95.9298 | 78.0298 | 3137 | 22 | 2899 | 123 | 76 | 61.7886 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5878 | 99.1228 | 96.0996 | 69.2547 | 4407 | 39 | 4361 | 177 | 169 | 95.4802 | |
| ckim-dragen | INDEL | D16_PLUS | * | het | 97.5880 | 99.0820 | 96.1385 | 80.1270 | 3130 | 29 | 2888 | 116 | 38 | 32.7586 | |
| jmaeng-gatk | INDEL | D1_5 | map_siren | het | 97.5886 | 99.3412 | 95.8968 | 85.7195 | 2262 | 15 | 2267 | 97 | 5 | 5.1546 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.5888 | 98.8754 | 96.3352 | 68.5340 | 9583 | 109 | 9621 | 366 | 21 | 5.7377 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5891 | 97.0144 | 98.1706 | 67.3997 | 29570 | 910 | 29515 | 550 | 132 | 24.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.5891 | 97.0144 | 98.1706 | 67.3997 | 29570 | 910 | 29515 | 550 | 132 | 24.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5896 | 95.5833 | 99.6819 | 79.9854 | 6579 | 304 | 6580 | 21 | 4 | 19.0476 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5900 | 96.6582 | 98.5399 | 68.6164 | 3442 | 119 | 3442 | 51 | 43 | 84.3137 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.5900 | 97.5610 | 97.6190 | 93.3754 | 40 | 1 | 41 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l150_m2_e1 | * | 97.5904 | 95.2941 | 100.0000 | 89.8113 | 81 | 4 | 81 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 97.5904 | 95.2941 | 100.0000 | 62.7193 | 81 | 4 | 85 | 0 | 0 | ||
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 97.5904 | 95.2941 | 100.0000 | 52.8736 | 81 | 4 | 82 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 97.5904 | 95.2941 | 100.0000 | 57.0681 | 81 | 4 | 82 | 0 | 0 | ||