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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
50201-50250 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 35.0186 | 30.4348 | 41.2281 | 58.5455 | 49 | 112 | 47 | 67 | 58 | 86.5672 | |
| ckim-vqsr | SNP | ti | map_l250_m1_e0 | homalt | 35.0103 | 21.2197 | 100.0000 | 96.6137 | 341 | 1266 | 341 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I16_PLUS | map_l100_m1_e0 | het | 34.9515 | 22.2222 | 81.8182 | 64.5161 | 4 | 14 | 9 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | map_l100_m2_e0 | het | 34.9515 | 22.2222 | 81.8182 | 68.5714 | 4 | 14 | 9 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | map_l100_m2_e1 | het | 34.9515 | 22.2222 | 81.8182 | 68.5714 | 4 | 14 | 9 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 34.9475 | 95.6522 | 21.3793 | 16.5708 | 154 | 7 | 155 | 570 | 530 | 92.9825 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 34.9312 | 22.1925 | 82.0000 | 62.4060 | 83 | 291 | 41 | 9 | 9 | 100.0000 | |
| asubramanian-gatk | SNP | ti | map_l150_m0_e0 | het | 34.9037 | 21.1497 | 99.8148 | 97.0413 | 1078 | 4019 | 1078 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 34.8996 | 38.9262 | 31.6279 | 50.4608 | 58 | 91 | 136 | 294 | 156 | 53.0612 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 34.8632 | 22.3938 | 78.6667 | 77.6119 | 58 | 201 | 59 | 16 | 16 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 34.8624 | 25.0000 | 57.5758 | 41.0714 | 4 | 12 | 19 | 14 | 14 | 100.0000 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 34.8549 | 24.7113 | 59.1245 | 71.3782 | 963 | 2934 | 959 | 663 | 642 | 96.8326 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 34.8293 | 37.7778 | 32.3077 | 48.0000 | 17 | 28 | 21 | 44 | 33 | 75.0000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 34.7933 | 24.1573 | 62.1622 | 74.0351 | 43 | 135 | 46 | 28 | 27 | 96.4286 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 34.7826 | 48.7805 | 27.0270 | 82.1256 | 20 | 21 | 20 | 54 | 49 | 90.7407 | |
| ciseli-custom | INDEL | I6_15 | map_l100_m0_e0 | het | 34.7826 | 23.5294 | 66.6667 | 93.8776 | 4 | 13 | 4 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 34.7826 | 47.6190 | 27.3973 | 95.0441 | 20 | 22 | 20 | 53 | 3 | 5.6604 | |
| gduggal-snapfb | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 34.7826 | 66.6667 | 23.5294 | 77.0270 | 2 | 1 | 4 | 13 | 3 | 23.0769 | |
| qzeng-custom | INDEL | D16_PLUS | map_l100_m0_e0 | homalt | 34.7826 | 80.0000 | 22.2222 | 97.4755 | 4 | 1 | 4 | 14 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | * | map_l250_m0_e0 | het | 34.7826 | 22.6415 | 75.0000 | 95.5307 | 12 | 41 | 12 | 4 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 34.7605 | 22.3938 | 77.6316 | 77.3134 | 58 | 201 | 59 | 17 | 17 | 100.0000 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 34.7483 | 93.6728 | 21.3304 | 80.5514 | 1214 | 82 | 1273 | 4695 | 107 | 2.2790 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 34.7356 | 24.1158 | 62.0690 | 73.8149 | 75 | 236 | 72 | 44 | 25 | 56.8182 | |
| anovak-vg | INDEL | * | HG002compoundhet | homalt | 34.7177 | 86.4431 | 21.7206 | 63.7894 | 593 | 93 | 1939 | 6988 | 5562 | 79.5936 | |
| asubramanian-gatk | SNP | * | map_l150_m2_e1 | homalt | 34.6568 | 20.9605 | 100.0000 | 92.1810 | 2479 | 9348 | 2479 | 0 | 0 | ||
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 34.6434 | 31.9820 | 37.7880 | 55.5328 | 71 | 151 | 82 | 135 | 123 | 91.1111 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m0_e0 | homalt | 34.6359 | 22.3881 | 76.4706 | 94.6875 | 15 | 52 | 13 | 4 | 1 | 25.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 34.6127 | 23.8776 | 62.8853 | 50.2149 | 117 | 373 | 510 | 301 | 47 | 15.6146 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 34.5930 | 24.0897 | 61.3362 | 63.5277 | 1429 | 4503 | 1423 | 897 | 832 | 92.7536 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 34.5747 | 92.5000 | 21.2608 | 78.3172 | 666 | 54 | 715 | 2648 | 56 | 2.1148 | |
| gduggal-bwavard | INDEL | D1_5 | HG002compoundhet | het | 34.5608 | 92.4769 | 21.2515 | 68.3690 | 1598 | 130 | 1569 | 5814 | 5564 | 95.7000 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 34.5477 | 35.3061 | 33.8212 | 42.2578 | 173 | 317 | 647 | 1266 | 1039 | 82.0695 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 34.5163 | 33.2073 | 35.9327 | 70.3914 | 2020 | 4063 | 2009 | 3582 | 3513 | 98.0737 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 34.5038 | 68.9034 | 23.0141 | 48.5298 | 421 | 190 | 423 | 1415 | 1414 | 99.9293 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 34.4828 | 20.8333 | 100.0000 | 90.9091 | 5 | 19 | 5 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | segdup | het | 34.4828 | 20.8333 | 100.0000 | 91.2281 | 5 | 19 | 5 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I6_15 | map_siren | homalt | 34.4828 | 22.2222 | 76.9231 | 89.1667 | 20 | 70 | 20 | 6 | 2 | 33.3333 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 34.4828 | 20.8333 | 100.0000 | 91.2281 | 5 | 19 | 5 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 34.4828 | 23.2558 | 66.6667 | 81.2500 | 10 | 33 | 6 | 3 | 2 | 66.6667 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 34.4736 | 24.7232 | 56.9231 | 34.0999 | 737 | 2244 | 1517 | 1148 | 971 | 84.5819 | |
| ckim-vqsr | SNP | * | map_l250_m2_e1 | homalt | 34.4702 | 20.8241 | 100.0000 | 96.9977 | 566 | 2152 | 566 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_l150_m2_e0 | homalt | 34.4676 | 20.8223 | 100.0000 | 92.2232 | 2436 | 9263 | 2436 | 0 | 0 | ||
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 34.4471 | 27.4775 | 46.1538 | 56.0976 | 61 | 161 | 108 | 126 | 89 | 70.6349 | |
| ckim-vqsr | SNP | tv | map_l125_m0_e0 | homalt | 34.4391 | 20.8014 | 100.0000 | 91.7691 | 462 | 1759 | 462 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 34.4349 | 24.2003 | 59.6699 | 64.4061 | 1672 | 5237 | 1663 | 1124 | 1036 | 92.1708 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 34.3818 | 27.5134 | 45.8204 | 41.0718 | 1081 | 2848 | 1184 | 1400 | 1153 | 82.3571 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 34.3653 | 22.6531 | 71.1538 | 64.7856 | 111 | 379 | 111 | 45 | 35 | 77.7778 | |
| asubramanian-gatk | SNP | tv | map_l125_m0_e0 | * | 34.3571 | 20.7510 | 99.7825 | 95.7011 | 1376 | 5255 | 1376 | 3 | 1 | 33.3333 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 34.3511 | 83.3333 | 21.6346 | 92.3048 | 85 | 17 | 90 | 326 | 5 | 1.5337 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 34.3511 | 75.0000 | 22.2772 | 90.2651 | 93 | 31 | 90 | 314 | 7 | 2.2293 | |