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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
7001-7050 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | I16_PLUS | HG002complexvar | het | 86.1405 | 88.2707 | 84.1108 | 65.5276 | 587 | 78 | 577 | 109 | 105 | 96.3303 | |
| qzeng-custom | INDEL | D16_PLUS | * | homalt | 83.8251 | 97.1040 | 73.7410 | 65.8948 | 1643 | 49 | 1640 | 584 | 105 | 17.9795 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 88.8820 | 96.0769 | 82.6897 | 71.8992 | 1200 | 49 | 1199 | 251 | 105 | 41.8327 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 88.8820 | 96.0769 | 82.6897 | 71.8992 | 1200 | 49 | 1199 | 251 | 105 | 41.8327 | |
| qzeng-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0366 | 99.3834 | 98.6923 | 64.9734 | 55288 | 343 | 55243 | 732 | 105 | 14.3443 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.2142 | 97.3128 | 99.1325 | 55.0694 | 30564 | 844 | 30624 | 268 | 105 | 39.1791 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.2142 | 97.3128 | 99.1325 | 55.0694 | 30564 | 844 | 30624 | 268 | 105 | 39.1791 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 89.0411 | 92.8475 | 85.5346 | 72.4341 | 688 | 53 | 680 | 115 | 105 | 91.3043 | |
| rpoplin-dv42 | INDEL | I16_PLUS | * | het | 94.8292 | 93.8926 | 95.7847 | 65.3540 | 2552 | 166 | 2545 | 112 | 105 | 93.7500 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002complexvar | * | 99.3509 | 99.0558 | 99.6477 | 56.5141 | 33048 | 315 | 33091 | 117 | 105 | 89.7436 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8446 | 99.8948 | 97.8162 | 47.4789 | 4748 | 5 | 4748 | 106 | 105 | 99.0566 | |
| rpoplin-dv42 | SNP | tv | * | het | 99.9398 | 99.9275 | 99.9522 | 22.4174 | 591267 | 429 | 591187 | 283 | 104 | 36.7491 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.5216 | 89.4845 | 95.7722 | 64.1176 | 3489 | 410 | 3330 | 147 | 104 | 70.7483 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 80.0682 | 72.8027 | 88.9447 | 68.9160 | 1756 | 656 | 885 | 110 | 104 | 94.5455 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.8869 | 95.0176 | 94.7566 | 72.8903 | 4596 | 241 | 4554 | 252 | 104 | 41.2698 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 70.3339 | 57.7444 | 89.9436 | 58.0772 | 384 | 281 | 957 | 107 | 104 | 97.1963 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | * | 83.5998 | 73.9721 | 96.1087 | 66.0264 | 3922 | 1380 | 3927 | 159 | 104 | 65.4088 | |
| ghariani-varprowl | SNP | ti | map_l125_m0_e0 | * | 97.4197 | 98.0724 | 96.7757 | 78.9680 | 12516 | 246 | 12516 | 417 | 104 | 24.9400 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.5070 | 99.9434 | 91.4477 | 66.7295 | 1766 | 1 | 1775 | 166 | 104 | 62.6506 | |
| gduggal-snapvard | SNP | tv | map_l150_m2_e1 | * | 91.6730 | 96.6093 | 87.2166 | 82.7232 | 11112 | 390 | 11080 | 1624 | 104 | 6.4039 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 50.1059 | 37.3855 | 75.9467 | 75.6447 | 1224 | 2050 | 1083 | 343 | 104 | 30.3207 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.5045 | 85.7025 | 98.1490 | 78.6703 | 14548 | 2427 | 14582 | 275 | 104 | 37.8182 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.5045 | 85.7025 | 98.1490 | 78.6703 | 14548 | 2427 | 14582 | 275 | 104 | 37.8182 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 69.4193 | 63.9344 | 75.9336 | 65.0725 | 312 | 176 | 366 | 116 | 104 | 89.6552 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4377 | 98.0757 | 98.8024 | 44.1799 | 3211 | 63 | 9405 | 114 | 104 | 91.2281 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6452 | 99.7262 | 99.5644 | 75.3068 | 33145 | 91 | 33139 | 145 | 104 | 71.7241 | |
| cchapple-custom | INDEL | I1_5 | HG002complexvar | * | 99.1800 | 98.7291 | 99.6350 | 52.8581 | 32939 | 424 | 31939 | 117 | 104 | 88.8889 | |
| ciseli-custom | INDEL | * | map_l125_m1_e0 | homalt | 66.8206 | 59.2896 | 76.5432 | 87.7564 | 434 | 298 | 434 | 133 | 104 | 78.1955 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.8906 | 94.5652 | 97.2537 | 40.0019 | 6351 | 365 | 6268 | 177 | 104 | 58.7571 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0424 | 98.7834 | 99.3028 | 71.2490 | 45146 | 556 | 45149 | 317 | 104 | 32.8076 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0424 | 98.7834 | 99.3028 | 71.2490 | 45146 | 556 | 45149 | 317 | 104 | 32.8076 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 89.1674 | 84.1986 | 94.7593 | 66.6240 | 2238 | 420 | 2224 | 123 | 104 | 84.5528 | |
| jpowers-varprowl | SNP | ti | map_l125_m0_e0 | het | 95.7486 | 95.1228 | 96.3826 | 81.5656 | 7860 | 403 | 7860 | 295 | 104 | 35.2542 | |
| ndellapenna-hhga | INDEL | D16_PLUS | * | homalt | 92.1150 | 94.2080 | 90.1130 | 60.6404 | 1594 | 98 | 1595 | 175 | 104 | 59.4286 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8254 | 98.0798 | 97.5723 | 79.1147 | 30545 | 598 | 30586 | 761 | 104 | 13.6662 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8254 | 98.0798 | 97.5723 | 79.1147 | 30545 | 598 | 30586 | 761 | 104 | 13.6662 | |
| mlin-fermikit | INDEL | * | map_l150_m2_e0 | * | 64.8581 | 52.4858 | 84.8624 | 85.1067 | 739 | 669 | 740 | 132 | 104 | 78.7879 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 83.9922 | 90.3153 | 78.4965 | 79.8804 | 401 | 43 | 449 | 123 | 104 | 84.5528 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1287 | 97.8680 | 98.3908 | 64.4221 | 8217 | 179 | 8193 | 134 | 104 | 77.6119 | |
| astatham-gatk | INDEL | D16_PLUS | * | * | 97.8775 | 98.0100 | 97.7454 | 70.7802 | 6649 | 135 | 6633 | 153 | 104 | 67.9739 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2879 | 97.3995 | 97.1766 | 75.1789 | 4869 | 130 | 4853 | 141 | 104 | 73.7589 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2879 | 97.3995 | 97.1766 | 75.1789 | 4869 | 130 | 4853 | 141 | 104 | 73.7589 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8560 | 99.1874 | 98.5268 | 58.9697 | 7324 | 60 | 7290 | 109 | 104 | 95.4128 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.1312 | 95.1667 | 97.1154 | 62.9013 | 3682 | 187 | 3636 | 108 | 104 | 96.2963 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.4635 | 95.4566 | 97.4919 | 64.1585 | 4244 | 202 | 4198 | 108 | 104 | 96.2963 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1330 | 96.7301 | 99.5772 | 56.3405 | 30381 | 1027 | 30382 | 129 | 103 | 79.8450 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1330 | 96.7301 | 99.5772 | 56.3405 | 30381 | 1027 | 30382 | 129 | 103 | 79.8450 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.9408 | 94.7790 | 97.1314 | 64.3062 | 3667 | 202 | 3623 | 107 | 103 | 96.2617 | |
| egarrison-hhga | INDEL | I6_15 | * | het | 97.7387 | 97.1494 | 98.3352 | 52.6628 | 9747 | 286 | 9746 | 165 | 103 | 62.4242 | |
| eyeh-varpipe | INDEL | * | map_l100_m1_e0 | homalt | 95.0121 | 96.0880 | 93.9601 | 84.1663 | 1179 | 48 | 1789 | 115 | 103 | 89.5652 | |