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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19901-19950 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.1724 | 96.1517 | 94.2128 | 83.1481 | 1749 | 70 | 1514 | 93 | 61 | 65.5914 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.1724 | 96.1517 | 94.2128 | 83.1481 | 1749 | 70 | 1514 | 93 | 61 | 65.5914 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1456 | 97.0290 | 99.2882 | 49.3199 | 17146 | 525 | 17018 | 122 | 80 | 65.5738 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1456 | 97.0290 | 99.2882 | 49.3199 | 17146 | 525 | 17018 | 122 | 80 | 65.5738 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 74.0703 | 72.3684 | 75.8542 | 64.2217 | 660 | 252 | 666 | 212 | 139 | 65.5660 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2829 | 94.9045 | 97.7021 | 68.8472 | 894 | 48 | 1233 | 29 | 19 | 65.5172 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.9871 | 99.9318 | 98.0602 | 53.4268 | 1465 | 1 | 1466 | 29 | 19 | 65.5172 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 40.3615 | 29.2553 | 65.0602 | 70.8772 | 55 | 133 | 54 | 29 | 19 | 65.5172 | |
| rpoplin-dv42 | SNP | ti | map_l250_m2_e1 | * | 98.5375 | 98.2270 | 98.8501 | 88.3448 | 4986 | 90 | 4986 | 58 | 38 | 65.5172 | |
| ndellapenna-hhga | INDEL | I16_PLUS | * | het | 94.4206 | 94.1869 | 94.6554 | 70.0188 | 2560 | 158 | 2568 | 145 | 95 | 65.5172 | |
| gduggal-bwavard | INDEL | I6_15 | map_l100_m1_e0 | * | 71.7489 | 70.1754 | 73.3945 | 86.6585 | 80 | 34 | 80 | 29 | 19 | 65.5172 | |
| gduggal-bwavard | INDEL | I6_15 | map_l100_m2_e0 | * | 72.2467 | 70.6897 | 73.8739 | 87.7212 | 82 | 34 | 82 | 29 | 19 | 65.5172 | |
| gduggal-bwavard | INDEL | I6_15 | map_l100_m2_e1 | * | 72.2467 | 70.6897 | 73.8739 | 87.9870 | 82 | 34 | 82 | 29 | 19 | 65.5172 | |
| gduggal-bwaplat | INDEL | I6_15 | * | * | 86.3949 | 77.4322 | 97.7041 | 60.0483 | 19221 | 5602 | 19235 | 452 | 296 | 65.4867 | |
| gduggal-bwavard | SNP | * | HG002complexvar | homalt | 98.4291 | 96.9651 | 99.9379 | 18.6318 | 279817 | 8758 | 270523 | 168 | 110 | 65.4762 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 92.5879 | 91.9586 | 93.2258 | 73.3046 | 1155 | 101 | 1156 | 84 | 55 | 65.4762 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4780 | 95.4382 | 99.6070 | 47.2963 | 21235 | 1015 | 21290 | 84 | 55 | 65.4762 | |
| gduggal-snapvard | SNP | ti | * | homalt | 99.4493 | 98.9663 | 99.9370 | 16.0694 | 794738 | 8301 | 790421 | 498 | 326 | 65.4618 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5394 | 97.9595 | 99.1262 | 72.9162 | 6289 | 131 | 6239 | 55 | 36 | 65.4545 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5394 | 97.9595 | 99.1262 | 72.9162 | 6289 | 131 | 6239 | 55 | 36 | 65.4545 | |
| rpoplin-dv42 | SNP | ti | map_l250_m1_e0 | * | 98.4440 | 98.1000 | 98.7904 | 87.6879 | 4492 | 87 | 4492 | 55 | 36 | 65.4545 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.1176 | 93.9650 | 96.2988 | 73.4406 | 1448 | 93 | 1431 | 55 | 36 | 65.4545 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 86.8178 | 81.4097 | 92.9955 | 56.2615 | 2899 | 662 | 2881 | 217 | 142 | 65.4378 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | * | 83.5998 | 73.9721 | 96.1087 | 66.0264 | 3922 | 1380 | 3927 | 159 | 104 | 65.4088 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m1_e0 | * | 97.7465 | 97.5904 | 97.9032 | 84.3789 | 810 | 20 | 1214 | 26 | 17 | 65.3846 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.0619 | 94.5157 | 99.7491 | 65.9214 | 20698 | 1201 | 20677 | 52 | 34 | 65.3846 | |
| eyeh-varpipe | INDEL | C6_15 | * | * | 89.4022 | 100.0000 | 80.8354 | 93.6057 | 7 | 0 | 329 | 78 | 51 | 65.3846 | |
| ckim-gatk | SNP | tv | HG002compoundhet | * | 99.2966 | 98.8905 | 99.7061 | 49.4688 | 8824 | 99 | 8821 | 26 | 17 | 65.3846 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.9502 | 96.5174 | 97.3869 | 63.5264 | 970 | 35 | 969 | 26 | 17 | 65.3846 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | * | 97.6888 | 96.0351 | 99.4005 | 50.9611 | 4602 | 190 | 4311 | 26 | 17 | 65.3846 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.9843 | 91.4144 | 98.8444 | 52.1785 | 2204 | 207 | 2224 | 26 | 17 | 65.3846 | |
| hfeng-pmm1 | INDEL | I6_15 | * | het | 98.8608 | 98.2558 | 99.4734 | 57.1305 | 9858 | 175 | 9823 | 52 | 34 | 65.3846 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 80.6350 | 85.9929 | 75.9055 | 63.7764 | 485 | 79 | 482 | 153 | 100 | 65.3595 | |
| jlack-gatk | SNP | ti | * | homalt | 99.9698 | 99.9522 | 99.9874 | 15.9699 | 802654 | 384 | 802644 | 101 | 66 | 65.3465 | |
| rpoplin-dv42 | SNP | * | map_l250_m1_e0 | * | 98.2210 | 97.8538 | 98.5910 | 87.3689 | 7067 | 155 | 7067 | 101 | 66 | 65.3465 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 52.6084 | 47.9255 | 58.3056 | 39.7096 | 566 | 615 | 702 | 502 | 328 | 65.3386 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.6770 | 98.5789 | 98.7753 | 48.4673 | 3954 | 57 | 3952 | 49 | 32 | 65.3061 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 23.0092 | 16.5049 | 37.9747 | 64.0909 | 34 | 172 | 30 | 49 | 32 | 65.3061 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 49.3293 | 70.3704 | 37.9747 | 63.2558 | 19 | 8 | 30 | 49 | 32 | 65.3061 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002complexvar | het | 88.9628 | 83.8302 | 94.7650 | 61.7021 | 928 | 179 | 887 | 49 | 32 | 65.3061 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.7313 | 99.3358 | 96.1778 | 82.5839 | 1346 | 9 | 1233 | 49 | 32 | 65.3061 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002complexvar | het | 91.7425 | 85.6452 | 98.7744 | 60.7292 | 15578 | 2611 | 15555 | 193 | 126 | 65.2850 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0379 | 96.6562 | 99.4597 | 63.5583 | 13297 | 460 | 13254 | 72 | 47 | 65.2778 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0379 | 96.6562 | 99.4597 | 63.5583 | 13297 | 460 | 13254 | 72 | 47 | 65.2778 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002compoundhet | het | 71.9355 | 85.0962 | 62.3003 | 78.5616 | 177 | 31 | 195 | 118 | 77 | 65.2542 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 72.6669 | 63.6190 | 84.7150 | 61.4963 | 668 | 382 | 654 | 118 | 77 | 65.2542 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 84.3168 | 83.7696 | 84.8712 | 76.9763 | 800 | 155 | 791 | 141 | 92 | 65.2482 | |
| gduggal-bwavard | SNP | tv | HG002complexvar | * | 98.2474 | 97.1213 | 99.3998 | 22.3354 | 239069 | 7086 | 234343 | 1415 | 923 | 65.2297 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.9472 | 94.6281 | 97.3036 | 80.6048 | 916 | 52 | 830 | 23 | 15 | 65.2174 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4965 | 92.9078 | 98.2335 | 72.2151 | 1310 | 100 | 1279 | 23 | 15 | 65.2174 | |