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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
42401-42450 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | D1_5 | map_l125_m1_e0 | * | 91.7326 | 95.8640 | 87.9427 | 88.9869 | 1043 | 45 | 1043 | 143 | 27 | 18.8811 | |
| jpowers-varprowl | INDEL | I1_5 | * | het | 91.4249 | 95.2000 | 87.9379 | 62.1984 | 75247 | 3794 | 75259 | 10323 | 10077 | 97.6170 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 63.9370 | 50.2304 | 87.9310 | 40.5128 | 109 | 108 | 102 | 14 | 10 | 71.4286 | |
| gduggal-snapplat | SNP | ti | map_siren | hetalt | 89.5492 | 91.2281 | 87.9310 | 76.7068 | 52 | 5 | 51 | 7 | 7 | 100.0000 | |
| ciseli-custom | INDEL | D1_5 | func_cds | * | 91.8919 | 96.2264 | 87.9310 | 36.2637 | 153 | 6 | 153 | 21 | 4 | 19.0476 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m1_e0 | homalt | 41.0416 | 26.7677 | 87.9310 | 92.1196 | 53 | 145 | 51 | 7 | 4 | 57.1429 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e0 | homalt | 40.5704 | 26.3682 | 87.9310 | 93.3333 | 53 | 148 | 51 | 7 | 4 | 57.1429 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e1 | homalt | 40.1098 | 25.9804 | 87.9310 | 93.5196 | 53 | 151 | 51 | 7 | 4 | 57.1429 | |
| ndellapenna-hhga | INDEL | * | map_l250_m0_e0 | het | 91.8919 | 96.2264 | 87.9310 | 97.3827 | 51 | 2 | 51 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | INDEL | I1_5 | map_l250_m2_e0 | het | 82.2581 | 77.2727 | 87.9310 | 97.8716 | 51 | 15 | 51 | 7 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_l250_m2_e1 | het | 82.2581 | 77.2727 | 87.9310 | 97.9454 | 51 | 15 | 51 | 7 | 0 | 0.0000 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 90.7742 | 93.8101 | 87.9287 | 67.8048 | 5850 | 386 | 6359 | 873 | 348 | 39.8625 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.6601 | 95.7237 | 87.9276 | 63.3075 | 873 | 39 | 874 | 120 | 63 | 52.5000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.6047 | 83.4039 | 87.9249 | 45.2229 | 985 | 196 | 983 | 135 | 134 | 99.2593 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 86.7571 | 85.6250 | 87.9195 | 87.5626 | 137 | 23 | 131 | 18 | 10 | 55.5556 | |
| gduggal-bwavard | INDEL | * | map_l100_m1_e0 | * | 90.3615 | 92.9448 | 87.9179 | 87.2169 | 3333 | 253 | 3340 | 459 | 189 | 41.1765 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 80.7791 | 74.7144 | 87.9154 | 43.6787 | 10921 | 3696 | 21956 | 3018 | 1053 | 34.8907 | |
| rpoplin-dv42 | INDEL | D1_5 | HG002compoundhet | homalt | 93.1153 | 98.9691 | 87.9154 | 78.3801 | 288 | 3 | 291 | 40 | 38 | 95.0000 | |
| mlin-fermikit | INDEL | I6_15 | map_l100_m2_e0 | * | 76.7503 | 68.1034 | 87.9121 | 83.6036 | 79 | 37 | 80 | 11 | 10 | 90.9091 | |
| mlin-fermikit | INDEL | I6_15 | map_l100_m2_e1 | * | 76.7503 | 68.1034 | 87.9121 | 83.9789 | 79 | 37 | 80 | 11 | 10 | 90.9091 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l100_m1_e0 | * | 89.8876 | 91.9540 | 87.9121 | 92.2421 | 80 | 7 | 80 | 11 | 2 | 18.1818 | |
| ckim-vqsr | INDEL | D16_PLUS | map_l100_m1_e0 | * | 89.8876 | 91.9540 | 87.9121 | 95.3737 | 80 | 7 | 80 | 11 | 4 | 36.3636 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 83.1025 | 78.7956 | 87.9076 | 66.5360 | 2787 | 750 | 2777 | 382 | 238 | 62.3037 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.5315 | 93.3228 | 87.9023 | 49.1930 | 13641 | 976 | 12701 | 1748 | 1525 | 87.2426 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 90.7009 | 93.6842 | 87.9017 | 84.8598 | 623 | 42 | 465 | 64 | 59 | 92.1875 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.2099 | 99.2021 | 87.9004 | 61.3834 | 746 | 6 | 741 | 102 | 102 | 100.0000 | |
| ghariani-varprowl | INDEL | * | map_l150_m2_e0 | * | 91.0274 | 94.3892 | 87.8968 | 95.3487 | 1329 | 79 | 1329 | 183 | 52 | 28.4153 | |
| gduggal-bwaplat | SNP | tv | HG002compoundhet | * | 87.7776 | 87.6611 | 87.8944 | 56.9502 | 7822 | 1101 | 7856 | 1082 | 151 | 13.9556 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 86.6995 | 85.5368 | 87.8943 | 72.5250 | 3099 | 524 | 3093 | 426 | 415 | 97.4178 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 89.8707 | 91.9395 | 87.8929 | 91.5916 | 730 | 64 | 755 | 104 | 4 | 3.8462 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m2_e0 | * | 92.9788 | 98.6894 | 87.8929 | 91.6415 | 753 | 10 | 755 | 104 | 4 | 3.8462 | |
| ciseli-custom | INDEL | I1_5 | segdup | het | 90.6052 | 93.4944 | 87.8893 | 95.0934 | 503 | 35 | 508 | 70 | 50 | 71.4286 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 92.9289 | 98.5861 | 87.8857 | 91.6492 | 767 | 11 | 769 | 106 | 5 | 4.7170 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 93.5518 | 100.0000 | 87.8849 | 70.8431 | 1387 | 0 | 1313 | 181 | 3 | 1.6575 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.1711 | 99.1342 | 87.8846 | 63.1467 | 458 | 4 | 457 | 63 | 48 | 76.1905 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4055 | 83.0652 | 87.8815 | 45.0961 | 981 | 200 | 979 | 135 | 134 | 99.2593 | |
| ltrigg-rtg2 | INDEL | C16_PLUS | HG002compoundhet | * | 0.0000 | 0.0000 | 87.8788 | 88.4211 | 0 | 0 | 29 | 4 | 4 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l100_m0_e0 | * | 87.8788 | 87.8788 | 87.8788 | 93.2927 | 29 | 4 | 29 | 4 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | I6_15 | map_siren | het | 82.4328 | 77.6224 | 87.8788 | 67.1968 | 111 | 32 | 145 | 20 | 18 | 90.0000 | |
| gduggal-snapplat | SNP | tv | tech_badpromoters | het | 87.8788 | 87.8788 | 87.8788 | 83.6634 | 29 | 4 | 29 | 4 | 0 | 0.0000 | |
| anovak-vg | INDEL | D16_PLUS | segdup | het | 82.8571 | 78.3784 | 87.8788 | 91.3613 | 29 | 8 | 29 | 4 | 3 | 75.0000 | |
| ciseli-custom | INDEL | I1_5 | HG002complexvar | * | 86.2012 | 84.5873 | 87.8779 | 52.9140 | 28220 | 5142 | 27874 | 3845 | 2974 | 77.3472 | |
| jmaeng-gatk | INDEL | * | HG002compoundhet | het | 92.6044 | 97.8749 | 87.8724 | 79.5506 | 4007 | 87 | 3775 | 521 | 513 | 98.4645 | |
| gduggal-snapvard | INDEL | D6_15 | HG002complexvar | homalt | 48.4509 | 33.4474 | 87.8641 | 42.5384 | 391 | 778 | 362 | 50 | 46 | 92.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.9809 | 86.1182 | 87.8610 | 55.6334 | 27048 | 4360 | 27135 | 3749 | 3406 | 90.8509 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.9809 | 86.1182 | 87.8610 | 55.6334 | 27048 | 4360 | 27135 | 3749 | 3406 | 90.8509 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.5616 | 97.8195 | 87.8400 | 82.6726 | 1301 | 29 | 1098 | 152 | 125 | 82.2368 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 92.6051 | 97.9373 | 87.8236 | 56.1886 | 11063 | 233 | 11468 | 1590 | 1468 | 92.3270 | |
| gduggal-bwavard | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.8096 | 96.1957 | 87.8060 | 82.7170 | 1947 | 77 | 1937 | 269 | 29 | 10.7807 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 37.1824 | 23.5849 | 87.8049 | 62.7273 | 25 | 81 | 72 | 10 | 10 | 100.0000 | |