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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12551-12600 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | D6_15 | HG002complexvar | * | 98.3071 | 98.0385 | 98.5771 | 58.5385 | 5198 | 104 | 5196 | 75 | 68 | 90.6667 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9522 | 99.9450 | 97.9790 | 62.2367 | 3636 | 2 | 3636 | 75 | 74 | 98.6667 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.3991 | 97.0540 | 88.1703 | 71.9469 | 593 | 18 | 559 | 75 | 71 | 94.6667 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 72.3612 | 91.8919 | 59.6774 | 74.1667 | 136 | 12 | 111 | 75 | 74 | 98.6667 | |
| astatham-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 94.5316 | 92.7671 | 96.3645 | 52.8349 | 1988 | 155 | 1988 | 75 | 75 | 100.0000 | |
| astatham-gatk | SNP | * | map_l125_m1_e0 | het | 85.6838 | 75.1515 | 99.6496 | 79.7424 | 21337 | 7055 | 21331 | 75 | 27 | 36.0000 | |
| astatham-gatk | SNP | * | map_l125_m2_e0 | het | 85.8236 | 75.3598 | 99.6616 | 80.7499 | 22094 | 7224 | 22088 | 75 | 27 | 36.0000 | |
| astatham-gatk | SNP | * | map_l125_m2_e1 | het | 85.8279 | 75.3644 | 99.6653 | 80.7852 | 22338 | 7302 | 22332 | 75 | 27 | 36.0000 | |
| asubramanian-gatk | INDEL | * | map_l125_m1_e0 | * | 91.1206 | 86.6635 | 96.0609 | 96.9394 | 1826 | 281 | 1829 | 75 | 8 | 10.6667 | |
| asubramanian-gatk | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 0.0000 | 0.0000 | 74.6622 | 0 | 0 | 0 | 75 | 0 | 0.0000 | ||
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 60.5316 | 65.3226 | 56.3953 | 87.8359 | 81 | 43 | 97 | 75 | 22 | 29.3333 | |
| anovak-vg | INDEL | * | func_cds | * | 81.4334 | 80.2247 | 82.6790 | 38.5816 | 357 | 88 | 358 | 75 | 54 | 72.0000 | |
| asubramanian-gatk | SNP | ti | segdup | het | 98.1746 | 97.0158 | 99.3614 | 92.7228 | 11671 | 359 | 11669 | 75 | 4 | 5.3333 | |
| qzeng-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6297 | 99.6336 | 99.6257 | 58.2037 | 20125 | 74 | 19963 | 75 | 44 | 58.6667 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002complexvar | het | 99.3853 | 99.2028 | 99.5685 | 52.2881 | 18044 | 145 | 17305 | 75 | 44 | 58.6667 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.7691 | 94.9258 | 98.6854 | 40.6471 | 5631 | 301 | 5630 | 75 | 56 | 74.6667 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.8193 | 92.4187 | 97.3479 | 49.5090 | 2755 | 226 | 2753 | 75 | 52 | 69.3333 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.2177 | 93.7500 | 96.7320 | 83.6118 | 2220 | 148 | 2220 | 75 | 48 | 64.0000 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 89.1561 | 84.4122 | 94.4649 | 85.8278 | 1278 | 236 | 1280 | 75 | 7 | 9.3333 | |
| ndellapenna-hhga | INDEL | D1_5 | * | hetalt | 77.7578 | 64.1093 | 98.7893 | 70.8854 | 6568 | 3677 | 6120 | 75 | 63 | 84.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 50.0995 | 86.0000 | 35.3448 | 60.4096 | 43 | 7 | 41 | 75 | 74 | 98.6667 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 71.2447 | 89.8649 | 59.0164 | 73.8944 | 133 | 15 | 108 | 75 | 75 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | segdup | * | 96.0650 | 98.9613 | 93.3333 | 95.5900 | 1048 | 11 | 1050 | 75 | 3 | 4.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6389 | 99.6975 | 99.5803 | 59.3397 | 17797 | 54 | 17796 | 75 | 5 | 6.6667 | |
| jli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6490 | 99.5246 | 99.7737 | 73.4430 | 33078 | 158 | 33071 | 75 | 56 | 74.6667 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | * | * | 90.7186 | 84.0050 | 98.5984 | 48.4241 | 5357 | 1020 | 5276 | 75 | 66 | 88.0000 | |
| jli-custom | SNP | tv | map_l150_m2_e0 | * | 99.0817 | 98.8287 | 99.3360 | 73.0560 | 11222 | 133 | 11221 | 75 | 23 | 30.6667 | |
| jli-custom | SNP | tv | map_l150_m2_e1 | * | 99.0935 | 98.8437 | 99.3446 | 73.0880 | 11369 | 133 | 11368 | 75 | 23 | 30.6667 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 51.5638 | 41.4948 | 68.0851 | 72.2550 | 161 | 227 | 160 | 75 | 74 | 98.6667 | |
| jpowers-varprowl | INDEL | D1_5 | segdup | het | 93.5461 | 97.3988 | 89.9866 | 95.0659 | 674 | 18 | 674 | 75 | 61 | 81.3333 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.5125 | 95.6457 | 99.4536 | 45.9819 | 13421 | 611 | 13651 | 75 | 74 | 98.6667 | |
| ltrigg-rtg1 | SNP | * | map_l125_m1_e0 | het | 98.7065 | 97.7001 | 99.7339 | 59.7345 | 27739 | 653 | 27739 | 74 | 12 | 16.2162 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3079 | 97.1210 | 99.5241 | 52.9586 | 15585 | 462 | 15476 | 74 | 51 | 68.9189 | |
| jmaeng-gatk | INDEL | I16_PLUS | * | homalt | 97.5243 | 99.6797 | 95.4601 | 72.0843 | 1556 | 5 | 1556 | 74 | 69 | 93.2432 | |
| jpowers-varprowl | INDEL | * | map_l150_m1_e0 | het | 92.1648 | 92.8655 | 91.4747 | 91.4533 | 794 | 61 | 794 | 74 | 48 | 64.8649 | |
| jli-custom | SNP | tv | map_l100_m0_e0 | * | 99.0774 | 98.8271 | 99.3290 | 64.5356 | 10954 | 130 | 10954 | 74 | 25 | 33.7838 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 95.4096 | 96.1426 | 94.6877 | 69.8615 | 1321 | 53 | 1319 | 74 | 68 | 91.8919 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 67.9363 | 62.1469 | 74.9153 | 66.2471 | 220 | 134 | 221 | 74 | 74 | 100.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | * | homalt | 72.0773 | 58.8061 | 93.0841 | 70.1867 | 995 | 697 | 996 | 74 | 68 | 91.8919 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e1 | het | 83.7221 | 81.0345 | 86.5942 | 94.7283 | 423 | 99 | 478 | 74 | 17 | 22.9730 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m2_e1 | * | 96.0476 | 95.9257 | 96.1698 | 84.5601 | 1860 | 79 | 1858 | 74 | 14 | 18.9189 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002compoundhet | homalt | 7.5000 | 100.0000 | 3.8961 | 67.2340 | 3 | 0 | 3 | 74 | 73 | 98.6486 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 23.2323 | 22.7723 | 23.7113 | 98.6305 | 23 | 78 | 23 | 74 | 6 | 8.1081 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 62.5592 | 92.9577 | 47.1429 | 58.2090 | 66 | 5 | 66 | 74 | 74 | 100.0000 | |
| gduggal-bwavard | INDEL | I6_15 | map_siren | het | 76.8135 | 95.1049 | 64.4231 | 86.2252 | 136 | 7 | 134 | 74 | 64 | 86.4865 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.0250 | 97.6820 | 98.3704 | 46.6267 | 4509 | 107 | 4467 | 74 | 19 | 25.6757 | |
| gduggal-bwavard | SNP | tv | segdup | het | 97.8517 | 97.1439 | 98.5698 | 95.5379 | 5136 | 151 | 5100 | 74 | 15 | 20.2703 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.4666 | 99.0196 | 94.0419 | 60.5213 | 1212 | 12 | 1168 | 74 | 18 | 24.3243 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 50.6627 | 34.2063 | 97.6335 | 41.8233 | 2769 | 5326 | 3053 | 74 | 71 | 95.9459 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 88.9527 | 87.7778 | 90.1596 | 65.0395 | 553 | 77 | 678 | 74 | 57 | 77.0270 | |