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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18751-18800 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.3240 | 95.7792 | 96.8750 | 60.5835 | 1180 | 52 | 1178 | 38 | 26 | 68.4211 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.2649 | 81.1856 | 94.3284 | 73.0491 | 315 | 73 | 316 | 19 | 13 | 68.4211 | |
| hfeng-pmm2 | SNP | tv | HG002complexvar | homalt | 99.9732 | 99.9664 | 99.9800 | 23.0303 | 95079 | 32 | 95074 | 19 | 13 | 68.4211 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.6982 | 98.8933 | 98.5039 | 87.7567 | 1251 | 14 | 1251 | 19 | 13 | 68.4211 | |
| jli-custom | INDEL | D16_PLUS | * | homalt | 99.0858 | 99.2908 | 98.8817 | 67.1754 | 1680 | 12 | 1680 | 19 | 13 | 68.4211 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.7625 | 99.0392 | 98.4873 | 71.5773 | 1237 | 12 | 1237 | 19 | 13 | 68.4211 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.7625 | 99.0392 | 98.4873 | 71.5773 | 1237 | 12 | 1237 | 19 | 13 | 68.4211 | |
| egarrison-hhga | SNP | * | * | homalt | 99.9329 | 99.8872 | 99.9785 | 18.1960 | 1178830 | 1331 | 1178859 | 253 | 173 | 68.3794 | |
| mlin-fermikit | INDEL | * | map_l150_m0_e0 | * | 55.2333 | 42.6070 | 78.4946 | 86.0290 | 219 | 295 | 219 | 60 | 41 | 68.3333 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 50.4202 | 43.0804 | 60.7748 | 52.4011 | 772 | 1020 | 753 | 486 | 332 | 68.3128 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 35.0904 | 39.3443 | 31.6667 | 53.3679 | 48 | 74 | 57 | 123 | 84 | 68.2927 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.9791 | 98.2989 | 99.6689 | 57.4619 | 12308 | 213 | 12341 | 41 | 28 | 68.2927 | |
| ckim-gatk | SNP | * | HG002compoundhet | het | 99.3772 | 99.0478 | 99.7088 | 46.6510 | 14043 | 135 | 14041 | 41 | 28 | 68.2927 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 91.0457 | 84.6445 | 98.4943 | 38.8914 | 2679 | 486 | 2682 | 41 | 28 | 68.2927 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 82.6699 | 77.1496 | 89.0409 | 77.8450 | 16895 | 5004 | 19914 | 2451 | 1673 | 68.2579 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | homalt | 99.4823 | 99.5116 | 99.4530 | 57.3903 | 26895 | 132 | 26910 | 148 | 101 | 68.2432 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.0820 | 92.6941 | 95.5121 | 71.6510 | 1827 | 144 | 1809 | 85 | 58 | 68.2353 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.0820 | 92.6941 | 95.5121 | 71.6510 | 1827 | 144 | 1809 | 85 | 58 | 68.2353 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.8274 | 91.5346 | 92.1220 | 61.6285 | 2022 | 187 | 2023 | 173 | 118 | 68.2081 | |
| egarrison-hhga | INDEL | D16_PLUS | map_siren | * | 81.2950 | 79.0210 | 83.7037 | 88.3520 | 113 | 30 | 113 | 22 | 15 | 68.1818 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.1071 | 92.2942 | 95.9927 | 56.4631 | 527 | 44 | 527 | 22 | 15 | 68.1818 | |
| egarrison-hhga | SNP | tv | * | homalt | 99.9252 | 99.8738 | 99.9766 | 20.9039 | 376647 | 476 | 376656 | 88 | 60 | 68.1818 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.6415 | 99.4695 | 99.8142 | 51.5034 | 11812 | 63 | 11817 | 22 | 15 | 68.1818 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.1743 | 84.7584 | 98.6411 | 42.0544 | 3192 | 574 | 3194 | 44 | 30 | 68.1818 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.1743 | 84.7584 | 98.6411 | 42.0544 | 3192 | 574 | 3194 | 44 | 30 | 68.1818 | |
| ckim-isaac | INDEL | I6_15 | HG002complexvar | hetalt | 70.4127 | 56.1733 | 94.3226 | 46.2179 | 687 | 536 | 731 | 44 | 30 | 68.1818 | |
| jmaeng-gatk | INDEL | * | map_siren | homalt | 99.1343 | 99.0960 | 99.1726 | 81.5411 | 2631 | 24 | 2637 | 22 | 15 | 68.1818 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.1713 | 99.1535 | 99.1891 | 87.0415 | 2694 | 23 | 2691 | 22 | 15 | 68.1818 | |
| rpoplin-dv42 | SNP | ti | map_l100_m2_e0 | * | 99.4660 | 99.2933 | 99.6392 | 64.7198 | 48615 | 346 | 48608 | 176 | 120 | 68.1818 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7590 | 99.5966 | 99.9219 | 57.4394 | 28146 | 114 | 28148 | 22 | 15 | 68.1818 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 95.2832 | 91.6502 | 99.2161 | 44.8245 | 5565 | 507 | 5569 | 44 | 30 | 68.1818 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.0988 | 99.0063 | 99.1915 | 87.6655 | 2690 | 27 | 2699 | 22 | 15 | 68.1818 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.5575 | 98.0766 | 99.0431 | 61.4154 | 6884 | 135 | 6831 | 66 | 45 | 68.1818 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.4529 | 98.4529 | 98.4529 | 88.1815 | 1400 | 22 | 1400 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | D16_PLUS | * | homalt | 98.8194 | 98.9362 | 98.7028 | 69.0115 | 1674 | 18 | 1674 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4013 | 98.5588 | 98.2442 | 73.3744 | 1231 | 18 | 1231 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4013 | 98.5588 | 98.2442 | 73.3744 | 1231 | 18 | 1231 | 22 | 15 | 68.1818 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 50.1585 | 49.1836 | 51.1729 | 59.7079 | 7892 | 8154 | 7919 | 7556 | 5150 | 68.1578 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m2_e1 | het | 94.4493 | 95.8991 | 93.0428 | 86.2663 | 1216 | 52 | 1217 | 91 | 62 | 68.1319 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 89.7651 | 91.4894 | 88.1046 | 61.3701 | 2021 | 188 | 2022 | 273 | 186 | 68.1319 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.6965 | 98.0478 | 99.3539 | 59.8156 | 10698 | 213 | 10610 | 69 | 47 | 68.1159 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.0258 | 97.6378 | 64.9746 | 77.1991 | 124 | 3 | 128 | 69 | 47 | 68.1159 | |
| anovak-vg | INDEL | D1_5 | * | het | 92.1131 | 94.4127 | 89.9228 | 55.4448 | 82681 | 4893 | 86771 | 9724 | 6623 | 68.1098 | |
| anovak-vg | SNP | * | func_cds | * | 98.5581 | 98.0331 | 99.0887 | 29.8522 | 17793 | 357 | 17724 | 163 | 111 | 68.0982 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.2513 | 95.6140 | 94.8913 | 62.4643 | 872 | 40 | 873 | 47 | 32 | 68.0851 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | * | 80.1461 | 78.4226 | 81.9472 | 64.9485 | 9595 | 2640 | 10454 | 2303 | 1568 | 68.0851 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.2390 | 100.0000 | 96.5390 | 41.8664 | 1311 | 0 | 1311 | 47 | 32 | 68.0851 | |
| anovak-vg | INDEL | I1_5 | map_l100_m0_e0 | * | 58.1032 | 59.3002 | 56.9536 | 86.9940 | 322 | 221 | 344 | 260 | 177 | 68.0769 | |
| gduggal-snapfb | INDEL | * | HG002complexvar | hetalt | 65.6662 | 59.9081 | 72.6490 | 79.8155 | 2216 | 1483 | 1097 | 413 | 281 | 68.0387 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 73.0417 | 73.5632 | 72.5275 | 81.8363 | 64 | 23 | 66 | 25 | 17 | 68.0000 | |