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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10951-11000 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 92.5840 | 86.9698 | 98.9730 | 26.4574 | 9658 | 1447 | 9926 | 103 | 93 | 90.2913 | |
| ciseli-custom | INDEL | D6_15 | map_l100_m1_e0 | * | 53.8462 | 51.5504 | 56.3559 | 88.4200 | 133 | 125 | 133 | 103 | 60 | 58.2524 | |
| ciseli-custom | INDEL | D6_15 | map_l100_m2_e0 | * | 54.3651 | 51.8939 | 57.0833 | 88.8786 | 137 | 127 | 137 | 103 | 60 | 58.2524 | |
| ckim-dragen | SNP | ti | func_cds | * | 99.6097 | 99.9637 | 99.2582 | 28.1352 | 13782 | 5 | 13782 | 103 | 1 | 0.9709 | |
| ckim-dragen | SNP | ti | func_cds | het | 99.3804 | 99.9647 | 98.8029 | 32.2466 | 8501 | 3 | 8501 | 103 | 1 | 0.9709 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.2061 | 97.3623 | 97.0504 | 40.0412 | 3359 | 91 | 3389 | 103 | 49 | 47.5728 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.2615 | 97.1904 | 89.6378 | 74.6299 | 934 | 27 | 891 | 103 | 93 | 90.2913 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.0166 | 98.1818 | 90.1905 | 68.4305 | 810 | 15 | 947 | 103 | 102 | 99.0291 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.0166 | 98.1818 | 90.1905 | 68.4305 | 810 | 15 | 947 | 103 | 102 | 99.0291 | |
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 64.4828 | 0 | 0 | 0 | 103 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.2696 | 96.9214 | 93.6732 | 86.2372 | 1763 | 56 | 1525 | 103 | 74 | 71.8447 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.2696 | 96.9214 | 93.6732 | 86.2372 | 1763 | 56 | 1525 | 103 | 74 | 71.8447 | |
| anovak-vg | INDEL | * | map_l150_m0_e0 | het | 69.8552 | 68.9150 | 70.8215 | 94.2917 | 235 | 106 | 250 | 103 | 35 | 33.9806 | |
| anovak-vg | INDEL | D1_5 | map_l125_m0_e0 | * | 80.9550 | 82.0565 | 79.8828 | 90.2159 | 407 | 89 | 409 | 103 | 43 | 41.7476 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 80.9804 | 74.1455 | 89.2034 | 78.7338 | 846 | 295 | 851 | 103 | 101 | 98.0583 | |
| mlin-fermikit | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.0436 | 96.7173 | 99.4069 | 53.0396 | 17265 | 586 | 17262 | 103 | 9 | 8.7379 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.3317 | 97.1116 | 95.5642 | 35.5358 | 2219 | 66 | 2219 | 103 | 98 | 95.1456 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m1_e0 | * | 69.1865 | 57.9044 | 85.9290 | 78.9897 | 630 | 458 | 629 | 103 | 90 | 87.3786 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m2_e0 | * | 70.4052 | 59.2301 | 86.7779 | 80.7464 | 677 | 466 | 676 | 103 | 90 | 87.3786 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.9297 | 97.2667 | 96.5950 | 72.0063 | 2918 | 82 | 2922 | 103 | 77 | 74.7573 | |
| ndellapenna-hhga | SNP | tv | HG002compoundhet | * | 98.0516 | 97.2879 | 98.8274 | 47.0684 | 8681 | 242 | 8681 | 103 | 93 | 90.2913 | |
| qzeng-custom | INDEL | * | map_l125_m1_e0 | het | 82.2615 | 74.0824 | 92.4708 | 92.9115 | 989 | 346 | 1265 | 103 | 35 | 33.9806 | |
| rpoplin-dv42 | SNP | tv | map_l125_m1_e0 | het | 98.9777 | 98.9729 | 98.9825 | 69.6562 | 10022 | 104 | 10020 | 103 | 54 | 52.4272 | |
| rpoplin-dv42 | SNP | * | map_l250_m2_e0 | * | 98.3456 | 98.0089 | 98.6847 | 88.0100 | 7728 | 157 | 7728 | 103 | 68 | 66.0194 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 91.3518 | 88.3601 | 94.5531 | 56.1456 | 1708 | 225 | 1788 | 103 | 103 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | * | het | 55.7818 | 39.5143 | 94.8163 | 37.5746 | 1074 | 1644 | 1884 | 103 | 103 | 100.0000 | |
| gduggal-bwavard | INDEL | * | map_l250_m2_e0 | * | 83.4899 | 93.9577 | 75.1208 | 96.3544 | 311 | 20 | 311 | 103 | 15 | 14.5631 | |
| gduggal-bwavard | INDEL | * | map_l250_m2_e1 | * | 83.5781 | 93.9940 | 75.2404 | 96.4341 | 313 | 20 | 313 | 103 | 15 | 14.5631 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 86.4112 | 86.4829 | 86.3395 | 72.9555 | 659 | 103 | 651 | 103 | 64 | 62.1359 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 31.4024 | 23.6715 | 46.6321 | 77.0784 | 98 | 316 | 90 | 103 | 93 | 90.2913 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 57.3067 | 82.0755 | 44.0217 | 76.7383 | 87 | 19 | 81 | 103 | 93 | 90.2913 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 82.8907 | 73.1218 | 95.6723 | 82.2308 | 2258 | 830 | 2277 | 103 | 19 | 18.4466 | |
| eyeh-varpipe | INDEL | D6_15 | HG002complexvar | hetalt | 51.3277 | 35.9329 | 89.8020 | 58.8427 | 364 | 649 | 907 | 103 | 102 | 99.0291 | |
| eyeh-varpipe | INDEL | D6_15 | HG002compoundhet | het | 60.1947 | 80.0234 | 48.2412 | 75.0000 | 685 | 171 | 96 | 103 | 100 | 97.0874 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.1773 | 86.7440 | 96.0881 | 48.8639 | 2840 | 434 | 2530 | 103 | 98 | 95.1456 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.9148 | 78.4053 | 97.4964 | 52.0513 | 4012 | 1105 | 4011 | 103 | 89 | 86.4078 | |
| ltrigg-rtg1 | SNP | * | map_l125_m2_e1 | * | 99.1279 | 98.4852 | 99.7790 | 64.7783 | 46487 | 715 | 46495 | 103 | 28 | 27.1845 | |
| ltrigg-rtg1 | SNP | ti | map_l100_m2_e1 | * | 99.3168 | 98.8481 | 99.7899 | 59.0336 | 48915 | 570 | 48917 | 103 | 29 | 28.1553 | |
| jpowers-varprowl | INDEL | * | map_l125_m1_e0 | het | 92.8465 | 93.3333 | 92.3647 | 89.2132 | 1246 | 89 | 1246 | 103 | 73 | 70.8738 | |
| jmaeng-gatk | INDEL | * | map_l125_m2_e0 | het | 95.4980 | 98.1308 | 93.0027 | 92.6879 | 1365 | 26 | 1369 | 103 | 7 | 6.7961 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m0_e0 | het | 91.3204 | 98.6464 | 85.0073 | 89.4535 | 583 | 8 | 584 | 103 | 5 | 4.8544 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 92.6175 | 98.6053 | 87.3153 | 91.1605 | 707 | 10 | 709 | 103 | 4 | 3.8835 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 89.8669 | 98.9627 | 82.3024 | 91.9768 | 477 | 5 | 479 | 103 | 4 | 3.8835 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.5715 | 90.7713 | 94.4444 | 75.0471 | 1977 | 201 | 1751 | 103 | 93 | 90.2913 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.2754 | 89.6920 | 97.1571 | 51.8026 | 3524 | 405 | 3520 | 103 | 96 | 93.2039 | |
| hfeng-pmm1 | SNP | ti | map_l100_m2_e0 | * | 99.5722 | 99.3566 | 99.7887 | 64.0145 | 48646 | 315 | 48639 | 103 | 32 | 31.0680 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.3106 | 99.8446 | 98.7824 | 50.8940 | 8353 | 13 | 8356 | 103 | 101 | 98.0583 | |
| gduggal-snapvard | INDEL | D1_5 | map_l250_m1_e0 | het | 73.8070 | 99.0991 | 58.8000 | 95.2866 | 110 | 1 | 147 | 103 | 16 | 15.5340 | |
| gduggal-snapfb | SNP | * | func_cds | * | 99.6978 | 99.9614 | 99.4355 | 28.3431 | 18143 | 7 | 18143 | 103 | 2 | 1.9418 | |
| gduggal-snapplat | INDEL | D6_15 | HG002complexvar | homalt | 52.8983 | 39.9487 | 78.2700 | 68.0162 | 467 | 702 | 371 | 103 | 66 | 64.0777 | |