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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
33251-33300 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | I6_15 | HG002complexvar | * | 38.3420 | 26.7738 | 67.5124 | 60.4148 | 1283 | 3509 | 1224 | 589 | 145 | 24.6180 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 94.7458 | 94.6281 | 94.8637 | 60.4149 | 916 | 52 | 905 | 49 | 36 | 73.4694 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 65.5538 | 64.1026 | 67.0722 | 60.4154 | 475 | 266 | 882 | 433 | 97 | 22.4018 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 76.5101 | 61.9565 | 100.0000 | 60.4167 | 57 | 35 | 57 | 0 | 0 | ||
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.5839 | 97.8372 | 99.3421 | 60.4167 | 769 | 17 | 755 | 5 | 2 | 40.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 16.5137 | 9.1047 | 88.6667 | 60.4222 | 60 | 599 | 133 | 17 | 17 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 16.5137 | 9.1047 | 88.6667 | 60.4222 | 60 | 599 | 133 | 17 | 17 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.9002 | 99.8433 | 99.9572 | 60.4236 | 7008 | 11 | 7004 | 3 | 2 | 66.6667 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4474 | 98.9552 | 99.9444 | 60.4265 | 10797 | 114 | 10794 | 6 | 4 | 66.6667 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 42.9887 | 39.8223 | 46.7021 | 60.4305 | 7037 | 10634 | 7031 | 8024 | 7936 | 98.9033 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 42.9887 | 39.8223 | 46.7021 | 60.4305 | 7037 | 10634 | 7031 | 8024 | 7936 | 98.9033 | |
| ciseli-custom | INDEL | I16_PLUS | HG002compoundhet | * | 0.6022 | 0.3733 | 1.5564 | 60.4311 | 8 | 2135 | 8 | 506 | 462 | 91.3043 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 93.4915 | 90.6675 | 96.4971 | 60.4318 | 5732 | 590 | 5730 | 208 | 164 | 78.8462 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 93.4915 | 90.6675 | 96.4971 | 60.4318 | 5732 | 590 | 5730 | 208 | 164 | 78.8462 | |
| bgallagher-sentieon | INDEL | * | * | het | 99.5620 | 99.6441 | 99.4801 | 60.4341 | 193442 | 691 | 193072 | 1009 | 623 | 61.7443 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4556 | 99.3958 | 99.5154 | 60.4361 | 1645 | 10 | 1643 | 8 | 5 | 62.5000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7380 | 98.9848 | 98.4925 | 60.4374 | 195 | 2 | 196 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 19.2500 | 18.4685 | 20.1005 | 60.4374 | 41 | 181 | 40 | 159 | 151 | 94.9686 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.5626 | 98.9848 | 88.7036 | 60.4379 | 1170 | 12 | 1170 | 149 | 147 | 98.6577 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.8776 | 92.0000 | 95.8333 | 60.4396 | 69 | 6 | 69 | 3 | 2 | 66.6667 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.2641 | 99.2497 | 95.3564 | 60.4398 | 1455 | 11 | 1458 | 71 | 8 | 11.2676 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 89.9308 | 89.1078 | 90.7692 | 60.4401 | 769 | 94 | 767 | 78 | 76 | 97.4359 | |
| rpoplin-dv42 | SNP | ti | map_l100_m1_e0 | homalt | 99.6655 | 99.5323 | 99.7990 | 60.4404 | 17876 | 84 | 17877 | 36 | 34 | 94.4444 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.2894 | 96.2963 | 96.2825 | 60.4412 | 260 | 10 | 259 | 10 | 7 | 70.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 84.9493 | 79.0158 | 91.8463 | 60.4412 | 3950 | 1049 | 3920 | 348 | 245 | 70.4023 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 84.9493 | 79.0158 | 91.8463 | 60.4412 | 3950 | 1049 | 3920 | 348 | 245 | 70.4023 | |
| gduggal-snapplat | INDEL | I6_15 | HG002complexvar | hetalt | 51.2055 | 35.5683 | 91.3793 | 60.4433 | 435 | 788 | 424 | 40 | 34 | 85.0000 | |
| ghariani-varprowl | INDEL | I1_5 | HG002complexvar | het | 95.0596 | 98.1636 | 92.1459 | 60.4443 | 17854 | 334 | 17833 | 1520 | 1222 | 80.3947 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 62.8376 | 94.6349 | 47.0342 | 60.4447 | 16863 | 956 | 16945 | 19082 | 18800 | 98.5222 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.5494 | 92.7996 | 96.3665 | 60.4456 | 5645 | 438 | 5543 | 209 | 197 | 94.2584 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6849 | 97.2767 | 98.0965 | 60.4473 | 15610 | 437 | 15615 | 303 | 282 | 93.0693 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8455 | 99.9742 | 99.7171 | 60.4476 | 3877 | 1 | 3877 | 11 | 0 | 0.0000 | |
| anovak-vg | SNP | ti | map_l100_m2_e0 | homalt | 92.0181 | 85.6628 | 99.3921 | 60.4480 | 15684 | 2625 | 15532 | 95 | 90 | 94.7368 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 48.3943 | 45.1362 | 52.1594 | 60.4503 | 7243 | 8804 | 7210 | 6613 | 6501 | 98.3064 | |
| dgrover-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.8320 | 96.0887 | 99.6397 | 60.4528 | 14814 | 603 | 14932 | 54 | 53 | 98.1481 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 87.7736 | 89.0780 | 86.5068 | 60.4550 | 1256 | 154 | 2526 | 394 | 302 | 76.6497 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.0203 | 98.2985 | 99.7527 | 60.4577 | 10919 | 189 | 10893 | 27 | 9 | 33.3333 | |
| jli-custom | SNP | ti | map_l100_m1_e0 | * | 99.4974 | 99.3240 | 99.6713 | 60.4603 | 47607 | 324 | 47605 | 157 | 50 | 31.8471 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 86.6667 | 100.0000 | 76.4706 | 60.4651 | 13 | 0 | 13 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8325 | 99.9226 | 99.7426 | 60.4661 | 3875 | 3 | 3875 | 10 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 81.0884 | 72.8543 | 91.4209 | 60.4663 | 730 | 272 | 682 | 64 | 49 | 76.5625 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 39.0386 | 32.6054 | 48.6345 | 60.4703 | 1299 | 2685 | 1300 | 1373 | 1338 | 97.4508 | |
| gduggal-bwavard | SNP | * | map_l100_m1_e0 | homalt | 98.6152 | 97.3744 | 99.8881 | 60.4751 | 26294 | 709 | 25878 | 29 | 23 | 79.3103 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.2109 | 98.7310 | 88.2753 | 60.4783 | 1167 | 15 | 1167 | 155 | 153 | 98.7097 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 90.8367 | 84.7594 | 97.8528 | 60.4848 | 317 | 57 | 319 | 7 | 7 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | * | het | 99.5857 | 99.4610 | 99.7107 | 60.4880 | 78615 | 426 | 78596 | 228 | 141 | 61.8421 | |
| ciseli-custom | SNP | ti | map_l100_m0_e0 | homalt | 88.5269 | 88.0499 | 89.0090 | 60.4888 | 6845 | 929 | 6835 | 844 | 695 | 82.3460 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 83.1927 | 97.3270 | 72.6431 | 60.4890 | 2476 | 68 | 2512 | 946 | 9 | 0.9514 | |
| astatham-gatk | INDEL | D1_5 | * | * | 99.5682 | 99.4433 | 99.6934 | 60.4898 | 145928 | 817 | 145983 | 449 | 317 | 70.6013 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | homalt | 98.0408 | 96.3523 | 99.7895 | 60.4906 | 26018 | 985 | 25605 | 54 | 41 | 75.9259 | |