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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
36201-36250 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 91.1765 | 88.5714 | 93.9394 | 81.7680 | 31 | 4 | 31 | 2 | 1 | 50.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 89.1100 | 88.5714 | 89.6552 | 88.5827 | 31 | 4 | 26 | 3 | 1 | 33.3333 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.7728 | 88.5693 | 93.0888 | 46.5749 | 1170 | 151 | 3071 | 228 | 79 | 34.6491 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 89.7585 | 88.5572 | 90.9928 | 62.2488 | 890 | 115 | 889 | 88 | 82 | 93.1818 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 91.9356 | 88.5572 | 95.5819 | 56.9174 | 890 | 115 | 887 | 41 | 15 | 36.5854 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 92.9690 | 88.5553 | 97.8458 | 55.3644 | 3451 | 446 | 3452 | 76 | 71 | 93.4211 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e0 | het | 77.9177 | 88.5496 | 69.5652 | 87.5000 | 116 | 15 | 192 | 84 | 9 | 10.7143 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.1073 | 88.5417 | 91.7293 | 71.7322 | 255 | 33 | 244 | 22 | 12 | 54.5455 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 66.4455 | 88.5350 | 53.1777 | 65.7562 | 834 | 108 | 820 | 722 | 692 | 95.8449 | |
| gduggal-bwavard | SNP | * | tech_badpromoters | * | 93.2795 | 88.5350 | 98.5612 | 47.3485 | 139 | 18 | 137 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | I6_15 | map_l100_m2_e0 | het | 93.1034 | 88.5246 | 98.1818 | 85.6397 | 54 | 7 | 54 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | I6_15 | map_l100_m2_e1 | het | 93.1034 | 88.5246 | 98.1818 | 85.9694 | 54 | 7 | 54 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l100_m2_e0 | het | 93.1034 | 88.5246 | 98.1818 | 86.9048 | 54 | 7 | 54 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l100_m2_e1 | het | 93.1034 | 88.5246 | 98.1818 | 87.2093 | 54 | 7 | 54 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | * | map_l250_m1_e0 | * | 90.7563 | 88.5246 | 93.1034 | 96.3179 | 270 | 35 | 270 | 20 | 12 | 60.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l100_m2_e0 | het | 92.3641 | 88.5246 | 96.5517 | 90.5383 | 54 | 7 | 56 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l100_m2_e1 | het | 92.3908 | 88.5246 | 96.6102 | 90.6051 | 54 | 7 | 57 | 2 | 1 | 50.0000 | |
| gduggal-snapvard | INDEL | I6_15 | map_l100_m2_e0 | het | 69.9557 | 88.5246 | 57.8261 | 79.7357 | 54 | 7 | 133 | 97 | 79 | 81.4433 | |
| gduggal-snapvard | INDEL | I6_15 | map_l100_m2_e1 | het | 70.0891 | 88.5246 | 58.0087 | 80.0690 | 54 | 7 | 134 | 97 | 79 | 81.4433 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.4579 | 88.5135 | 98.9873 | 78.5209 | 393 | 51 | 391 | 4 | 3 | 75.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 55.0999 | 88.5135 | 40.0000 | 49.5006 | 131 | 17 | 182 | 273 | 271 | 99.2674 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.4735 | 88.5110 | 99.0255 | 55.9755 | 2134 | 277 | 2134 | 21 | 19 | 90.4762 | |
| anovak-vg | SNP | ti | map_l100_m1_e0 | * | 84.3963 | 88.5106 | 80.6475 | 68.7475 | 42424 | 5507 | 42052 | 10091 | 2274 | 22.5349 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.0530 | 88.5102 | 85.6431 | 75.6731 | 1610 | 209 | 1718 | 288 | 261 | 90.6250 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.0530 | 88.5102 | 85.6431 | 75.6731 | 1610 | 209 | 1718 | 288 | 261 | 90.6250 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7711 | 88.5057 | 97.4684 | 84.9810 | 77 | 10 | 77 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7711 | 88.5057 | 97.4684 | 85.1504 | 77 | 10 | 77 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.1545 | 88.4965 | 93.9771 | 38.2912 | 8370 | 1088 | 8301 | 532 | 447 | 84.0226 | |
| jpowers-varprowl | INDEL | I1_5 | map_l250_m2_e0 | * | 90.4977 | 88.4956 | 92.5926 | 96.4167 | 100 | 13 | 100 | 8 | 4 | 50.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 82.1636 | 88.4927 | 76.6793 | 63.1888 | 3599 | 468 | 3847 | 1170 | 372 | 31.7949 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.7461 | 88.4908 | 97.4313 | 66.6799 | 1630 | 212 | 1631 | 43 | 33 | 76.7442 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.8037 | 88.4906 | 99.7955 | 45.1178 | 469 | 61 | 488 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.8037 | 88.4906 | 99.7955 | 45.1178 | 469 | 61 | 488 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | SNP | ti | map_l125_m0_e0 | * | 91.6685 | 88.4893 | 95.0846 | 83.9409 | 11293 | 1469 | 11297 | 584 | 340 | 58.2192 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.0230 | 88.4886 | 91.6115 | 43.8230 | 6534 | 850 | 11631 | 1065 | 307 | 28.8263 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 43.9869 | 88.4848 | 29.2683 | 52.5554 | 292 | 38 | 288 | 696 | 682 | 97.9885 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 55.9506 | 88.4848 | 40.9091 | 87.7738 | 146 | 19 | 153 | 221 | 13 | 5.8824 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 83.2757 | 88.4848 | 78.6458 | 93.1794 | 146 | 19 | 151 | 41 | 12 | 29.2683 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 78.8161 | 88.4841 | 71.0526 | 89.1898 | 753 | 98 | 729 | 297 | 73 | 24.5791 | |
| gduggal-bwafb | INDEL | D6_15 | segdup | * | 92.1680 | 88.4817 | 96.1749 | 92.8987 | 169 | 22 | 176 | 7 | 7 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e0 | het | 82.1558 | 88.4817 | 76.6741 | 87.9456 | 676 | 88 | 687 | 209 | 69 | 33.0144 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 85.0584 | 88.4799 | 81.8917 | 87.8767 | 2404 | 313 | 2329 | 515 | 146 | 28.3495 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 92.0742 | 88.4708 | 95.9835 | 76.8106 | 3668 | 478 | 3728 | 156 | 82 | 52.5641 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.6552 | 88.4686 | 99.4878 | 37.7483 | 2409 | 314 | 2525 | 13 | 13 | 100.0000 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 86.3919 | 88.4669 | 84.4120 | 88.2444 | 1258 | 164 | 1213 | 224 | 72 | 32.1429 | |
| ciseli-custom | INDEL | D1_5 | * | * | 87.6336 | 88.4662 | 86.8164 | 62.0849 | 129818 | 16925 | 129564 | 19675 | 10919 | 55.4968 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 85.1837 | 88.4652 | 82.1369 | 53.6130 | 7401 | 965 | 7403 | 1610 | 1503 | 93.3540 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.7218 | 88.4618 | 97.4128 | 51.1450 | 15763 | 2056 | 30197 | 802 | 660 | 82.2943 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_siren | het | 65.0768 | 88.4615 | 51.4706 | 92.9130 | 69 | 9 | 70 | 66 | 34 | 51.5152 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.8776 | 88.4615 | 100.0000 | 90.9449 | 23 | 3 | 23 | 0 | 0 | ||