PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68001-68050 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7252 | 99.5058 | 99.9456 | 54.0983 | 14697 | 73 | 14698 | 8 | 4 | 50.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8632 | 98.1277 | 99.6099 | 65.9765 | 3826 | 73 | 3830 | 15 | 10 | 66.6667 | |
| mlin-fermikit | INDEL | I1_5 | map_l250_m2_e0 | * | 50.9554 | 35.3982 | 90.9091 | 94.0860 | 40 | 73 | 40 | 4 | 3 | 75.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l250_m2_e1 | * | 51.5723 | 35.9649 | 91.1111 | 94.1710 | 41 | 73 | 41 | 4 | 3 | 75.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 91.6770 | 95.2628 | 88.3513 | 55.6869 | 1468 | 73 | 6227 | 821 | 401 | 48.8429 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 79.1429 | 0.0000 | 0.0000 | 277 | 73 | 0 | 0 | 0 | ||
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 77.2082 | 72.8625 | 82.1053 | 86.6197 | 196 | 73 | 78 | 17 | 10 | 58.8235 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.4206 | 97.7525 | 97.0909 | 66.2577 | 3175 | 73 | 3204 | 96 | 3 | 3.1250 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 81.1769 | 94.8227 | 70.9646 | 59.4330 | 1337 | 73 | 1442 | 590 | 557 | 94.4068 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.9967 | 89.0226 | 97.3422 | 75.0725 | 592 | 73 | 586 | 16 | 11 | 68.7500 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.8154 | 96.2235 | 99.4609 | 53.5902 | 1860 | 73 | 1845 | 10 | 10 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.7606 | 94.4613 | 95.0617 | 64.4054 | 1245 | 73 | 1232 | 64 | 61 | 95.3125 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 97.1552 | 96.0498 | 98.2863 | 84.7368 | 1775 | 73 | 1778 | 31 | 6 | 19.3548 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.2293 | 98.4908 | 99.9790 | 69.4708 | 4764 | 73 | 4764 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l125_m0_e0 | homalt | 99.0916 | 98.3745 | 99.8192 | 66.7668 | 4418 | 73 | 4418 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | het | 97.0125 | 97.6891 | 96.3452 | 79.1579 | 3086 | 73 | 2847 | 108 | 74 | 68.5185 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 51.7766 | 41.1290 | 69.8630 | 99.9464 | 51 | 73 | 51 | 22 | 18 | 81.8182 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.0855 | 98.2042 | 97.9671 | 47.8546 | 3992 | 73 | 4048 | 84 | 36 | 42.8571 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m2_e0 | het | 88.6513 | 85.7977 | 91.7012 | 92.6948 | 441 | 73 | 442 | 40 | 4 | 10.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.8322 | 98.8294 | 96.8550 | 70.8320 | 6163 | 73 | 6190 | 201 | 20 | 9.9503 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7238 | 91.2679 | 98.4516 | 67.1749 | 763 | 73 | 763 | 12 | 11 | 91.6667 | |
| ciseli-custom | INDEL | D16_PLUS | map_siren | * | 56.9106 | 48.9510 | 67.9612 | 87.2050 | 70 | 73 | 70 | 33 | 21 | 63.6364 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 77.0060 | 92.0824 | 66.1719 | 76.4316 | 849 | 73 | 847 | 433 | 45 | 10.3926 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 28.0702 | 17.9775 | 64.0000 | 78.6325 | 16 | 73 | 16 | 9 | 8 | 88.8889 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.0196 | 84.7280 | 85.3132 | 69.0508 | 405 | 73 | 395 | 68 | 65 | 95.5882 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.0531 | 89.5265 | 99.0617 | 37.9884 | 624 | 73 | 739 | 7 | 7 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | * | het | 98.8252 | 99.3703 | 98.2861 | 64.1967 | 11519 | 73 | 11469 | 200 | 170 | 85.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 86.0411 | 80.9896 | 91.7647 | 78.8951 | 311 | 73 | 312 | 28 | 8 | 28.5714 | |
| ckim-isaac | INDEL | D16_PLUS | map_l100_m2_e1 | * | 37.7178 | 24.7423 | 79.3103 | 92.0330 | 24 | 73 | 23 | 6 | 3 | 50.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 94.0932 | 92.0824 | 96.1938 | 68.2998 | 849 | 73 | 834 | 33 | 15 | 45.4545 | |
| ckim-isaac | INDEL | D6_15 | map_l125_m2_e1 | * | 59.4595 | 42.9688 | 96.4912 | 90.9236 | 55 | 73 | 55 | 2 | 2 | 100.0000 | |
| dgrover-gatk | SNP | * | map_l125_m0_e0 | homalt | 99.3639 | 98.9124 | 99.8196 | 67.9886 | 6639 | 73 | 6639 | 12 | 8 | 66.6667 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e0 | homalt | 99.6336 | 99.3573 | 99.9115 | 66.1532 | 11285 | 73 | 11285 | 10 | 8 | 80.0000 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e1 | homalt | 99.6368 | 99.3629 | 99.9122 | 66.1709 | 11385 | 73 | 11385 | 10 | 8 | 80.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 87.4816 | 88.0131 | 86.9565 | 72.4315 | 536 | 73 | 560 | 84 | 71 | 84.5238 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.7803 | 96.9198 | 92.7331 | 49.7056 | 2297 | 73 | 2297 | 180 | 49 | 27.2222 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.2649 | 81.1856 | 94.3284 | 73.0491 | 315 | 73 | 316 | 19 | 13 | 68.4211 | |
| ckim-isaac | INDEL | I6_15 | map_siren | het | 65.4206 | 48.9510 | 98.5915 | 87.8425 | 70 | 73 | 70 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | HG002compoundhet | het | 93.3882 | 98.2169 | 89.0120 | 79.6916 | 4021 | 73 | 3775 | 466 | 457 | 98.0687 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.5951 | 96.6483 | 92.6274 | 77.7912 | 2105 | 73 | 1872 | 149 | 135 | 90.6040 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.3889 | 94.4487 | 96.3481 | 51.8879 | 1242 | 73 | 1240 | 47 | 41 | 87.2340 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.5181 | 86.3806 | 95.0719 | 63.1897 | 463 | 73 | 463 | 24 | 21 | 87.5000 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | * | 98.4239 | 98.0564 | 98.7942 | 84.0281 | 3683 | 73 | 3687 | 45 | 15 | 33.3333 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.3523 | 89.5265 | 99.7279 | 38.0270 | 624 | 73 | 733 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.2604 | 90.1484 | 98.7654 | 72.0930 | 668 | 73 | 640 | 8 | 6 | 75.0000 | |
| hfeng-pmm3 | SNP | * | map_l250_m1_e0 | het | 98.6931 | 98.4648 | 98.9225 | 88.7103 | 4682 | 73 | 4682 | 51 | 3 | 5.8824 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e0 | het | 98.7752 | 98.5945 | 98.9565 | 89.0448 | 5121 | 73 | 5121 | 54 | 3 | 5.5556 | |
| hfeng-pmm3 | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.6122 | 99.3198 | 99.9063 | 37.9962 | 10659 | 73 | 10659 | 10 | 4 | 40.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9050 | 97.9929 | 99.8342 | 48.4986 | 3613 | 74 | 3613 | 6 | 3 | 50.0000 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e1 | het | 98.7819 | 98.5942 | 98.9703 | 89.1221 | 5190 | 74 | 5190 | 54 | 3 | 5.5556 | |