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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5501-5550 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.4186 | 95.3591 | 95.4783 | 74.6523 | 4767 | 232 | 4751 | 225 | 163 | 72.4444 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.4186 | 95.3591 | 95.4783 | 74.6523 | 4767 | 232 | 4751 | 225 | 163 | 72.4444 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002compoundhet | * | 95.3103 | 92.7251 | 98.0438 | 33.3983 | 8374 | 657 | 8370 | 167 | 162 | 97.0060 | |
| hfeng-pmm3 | INDEL | D6_15 | * | * | 98.0738 | 96.8879 | 99.2891 | 51.0206 | 25280 | 812 | 25279 | 181 | 162 | 89.5028 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2064 | 95.5068 | 98.9676 | 53.3545 | 16877 | 794 | 16872 | 176 | 162 | 92.0455 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2064 | 95.5068 | 98.9676 | 53.3545 | 16877 | 794 | 16872 | 176 | 162 | 92.0455 | |
| anovak-vg | INDEL | I1_5 | map_l150_m2_e1 | * | 59.8471 | 62.1469 | 57.7114 | 90.7116 | 330 | 201 | 348 | 255 | 162 | 63.5294 | |
| astatham-gatk | SNP | * | * | * | 99.5934 | 99.2091 | 99.9807 | 19.0428 | 3030461 | 24158 | 3030315 | 584 | 162 | 27.7397 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 93.0148 | 88.2142 | 98.3681 | 47.4010 | 5157 | 689 | 11935 | 198 | 162 | 81.8182 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 93.0148 | 88.2142 | 98.3681 | 47.4010 | 5157 | 689 | 11935 | 198 | 162 | 81.8182 | |
| gduggal-bwavard | SNP | * | map_l125_m1_e0 | het | 94.0558 | 97.9149 | 90.4894 | 82.0185 | 27800 | 592 | 27478 | 2888 | 162 | 5.6094 | |
| eyeh-varpipe | INDEL | D1_5 | * | hetalt | 58.3169 | 41.7179 | 96.8535 | 76.3736 | 4274 | 5971 | 5356 | 174 | 162 | 93.1034 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 93.4462 | 95.8525 | 91.1578 | 42.6611 | 1872 | 81 | 1866 | 181 | 162 | 89.5028 | |
| cchapple-custom | SNP | ti | map_l150_m2_e0 | het | 96.0807 | 96.8481 | 95.3254 | 81.6490 | 12475 | 406 | 12480 | 612 | 162 | 26.4706 | |
| ckim-dragen | SNP | ti | map_siren | * | 99.0224 | 99.5177 | 98.5321 | 56.8522 | 99871 | 484 | 99880 | 1488 | 162 | 10.8871 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 85.3739 | 82.2047 | 88.7974 | 65.9324 | 2185 | 473 | 2156 | 272 | 162 | 59.5588 | |
| ltrigg-rtg1 | INDEL | * | * | het | 99.1142 | 98.5886 | 99.6455 | 55.1307 | 191393 | 2740 | 190584 | 678 | 162 | 23.8938 | |
| ltrigg-rtg2 | INDEL | * | * | homalt | 99.5524 | 99.2554 | 99.8512 | 52.3128 | 124239 | 932 | 124115 | 185 | 162 | 87.5676 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.4422 | 96.4266 | 98.4794 | 49.9423 | 10686 | 396 | 10686 | 165 | 162 | 98.1818 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 92.7175 | 97.4908 | 88.3898 | 77.5276 | 1321 | 34 | 1279 | 168 | 162 | 96.4286 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 80.2126 | 73.2143 | 88.6901 | 63.6383 | 1558 | 570 | 1537 | 196 | 162 | 82.6531 | |
| eyeh-varpipe | INDEL | * | map_siren | homalt | 94.7726 | 96.1959 | 93.3908 | 81.3483 | 2554 | 101 | 2925 | 207 | 162 | 78.2609 | |
| ghariani-varprowl | SNP | * | map_l125_m0_e0 | het | 96.3272 | 98.5786 | 94.1762 | 82.3918 | 12484 | 180 | 12484 | 772 | 162 | 20.9845 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m2_e0 | het | 87.6928 | 97.6911 | 79.5511 | 87.5070 | 1227 | 29 | 1595 | 410 | 161 | 39.2683 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m2_e1 | het | 87.6002 | 97.6341 | 79.4365 | 87.6420 | 1238 | 30 | 1607 | 416 | 161 | 38.7019 | |
| gduggal-snapplat | INDEL | D6_15 | HG002compoundhet | het | 18.8426 | 19.6262 | 18.1193 | 66.4873 | 168 | 688 | 79 | 357 | 161 | 45.0980 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 39.4599 | 40.5405 | 38.4354 | 56.0538 | 60 | 88 | 113 | 181 | 161 | 88.9503 | |
| ciseli-custom | INDEL | C1_5 | * | * | 32.7774 | 40.0000 | 27.7641 | 94.8771 | 4 | 6 | 339 | 882 | 161 | 18.2540 | |
| ciseli-custom | SNP | * | map_l100_m2_e0 | het | 81.8850 | 77.2883 | 87.0629 | 75.7023 | 35861 | 10538 | 35782 | 5317 | 161 | 3.0280 | |
| ciseli-custom | SNP | * | map_l100_m2_e1 | het | 81.9772 | 77.3999 | 87.1298 | 75.6982 | 36299 | 10599 | 36219 | 5350 | 161 | 3.0094 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 85.0896 | 95.8333 | 76.5120 | 54.1586 | 552 | 24 | 544 | 167 | 161 | 96.4072 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 45.5773 | 40.9756 | 51.3433 | 39.6396 | 84 | 121 | 172 | 163 | 161 | 98.7730 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 45.5773 | 40.9756 | 51.3433 | 39.6396 | 84 | 121 | 172 | 163 | 161 | 98.7730 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 87.8983 | 88.3895 | 87.4126 | 38.3916 | 236 | 31 | 1125 | 162 | 161 | 99.3827 | |
| gduggal-bwafb | SNP | * | map_l100_m1_e0 | * | 99.0258 | 99.1202 | 98.9317 | 67.1588 | 71766 | 637 | 71768 | 775 | 161 | 20.7742 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 86.6541 | 92.2535 | 81.6956 | 79.2980 | 786 | 66 | 848 | 190 | 161 | 84.7368 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.6166 | 92.7056 | 98.7164 | 31.4832 | 12760 | 1004 | 13612 | 177 | 161 | 90.9605 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.7974 | 80.3556 | 85.3922 | 44.8533 | 949 | 232 | 947 | 162 | 161 | 99.3827 | |
| mlin-fermikit | INDEL | * | map_l125_m2_e1 | * | 69.4080 | 58.1573 | 86.0558 | 82.7274 | 1294 | 931 | 1296 | 210 | 161 | 76.6667 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 61.1681 | 90.3704 | 46.2295 | 44.2413 | 122 | 13 | 141 | 164 | 161 | 98.1707 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 62.7472 | 53.2934 | 76.2784 | 60.3827 | 534 | 468 | 537 | 167 | 161 | 96.4072 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6979 | 99.1678 | 96.2710 | 69.5061 | 4409 | 37 | 4363 | 169 | 161 | 95.2663 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.4468 | 99.1471 | 95.8038 | 68.8013 | 3836 | 33 | 3790 | 166 | 160 | 96.3855 | |
| cchapple-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.2958 | 98.2345 | 92.5278 | 57.6262 | 2170 | 39 | 2167 | 175 | 160 | 91.4286 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 41.5658 | 38.7187 | 44.8649 | 39.9351 | 139 | 220 | 166 | 204 | 160 | 78.4314 | |
| anovak-vg | INDEL | * | map_l150_m2_e0 | homalt | 76.2649 | 84.1996 | 69.6970 | 88.0938 | 405 | 76 | 414 | 180 | 160 | 88.8889 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.5930 | 99.2105 | 97.9830 | 63.7025 | 8294 | 66 | 8307 | 171 | 160 | 93.5673 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.5930 | 99.2105 | 97.9830 | 63.7025 | 8294 | 66 | 8307 | 171 | 160 | 93.5673 | |
| ciseli-custom | SNP | tv | map_l150_m0_e0 | homalt | 82.2034 | 80.3464 | 84.1483 | 77.4538 | 1067 | 261 | 1067 | 201 | 160 | 79.6020 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 77.9859 | 92.7577 | 67.2727 | 45.6641 | 333 | 26 | 333 | 162 | 160 | 98.7654 | |