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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56301-56350 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | * | map_siren | * | 97.7903 | 97.6113 | 97.9700 | 96.5183 | 7233 | 177 | 7239 | 150 | 78 | 52.0000 | |
| ckim-isaac | INDEL | * | map_l100_m1_e0 | het | 83.9386 | 73.4228 | 97.9701 | 85.4069 | 1641 | 594 | 1641 | 34 | 14 | 41.1765 | |
| mlin-fermikit | INDEL | D1_5 | segdup | * | 97.1654 | 96.3735 | 97.9705 | 92.4302 | 1063 | 40 | 1062 | 22 | 19 | 86.3636 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.8292 | 97.6879 | 97.9710 | 69.1137 | 338 | 8 | 338 | 7 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6405 | 97.3120 | 97.9712 | 57.8582 | 17196 | 475 | 17191 | 356 | 338 | 94.9438 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6405 | 97.3120 | 97.9712 | 57.8582 | 17196 | 475 | 17191 | 356 | 338 | 94.9438 | |
| egarrison-hhga | INDEL | * | map_siren | * | 97.8660 | 97.7598 | 97.9724 | 96.4159 | 7244 | 166 | 7248 | 150 | 78 | 52.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.6266 | 99.2892 | 97.9729 | 65.4849 | 12432 | 89 | 12276 | 254 | 243 | 95.6693 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.3687 | 96.7718 | 97.9730 | 70.6802 | 1319 | 44 | 1305 | 27 | 14 | 51.8519 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m0_e0 | homalt | 97.2926 | 96.6216 | 97.9730 | 91.7226 | 143 | 5 | 145 | 3 | 2 | 66.6667 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.4254 | 93.0070 | 97.9730 | 92.5963 | 133 | 10 | 145 | 3 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.1543 | 98.3354 | 97.9739 | 68.1869 | 13528 | 229 | 13491 | 279 | 216 | 77.4194 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.1543 | 98.3354 | 97.9739 | 68.1869 | 13528 | 229 | 13491 | 279 | 216 | 77.4194 | |
| dgrover-gatk | SNP | tv | map_l125_m0_e0 | het | 98.4509 | 98.9321 | 97.9743 | 81.0960 | 4354 | 47 | 4353 | 90 | 15 | 16.6667 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9125 | 99.8688 | 97.9744 | 43.3648 | 11418 | 15 | 11415 | 236 | 2 | 0.8475 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m2_e0 | het | 98.2018 | 98.4293 | 97.9753 | 85.2570 | 752 | 12 | 871 | 18 | 5 | 27.7778 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5075 | 99.0450 | 97.9757 | 72.8173 | 726 | 7 | 726 | 15 | 12 | 80.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.9769 | 97.9769 | 97.9769 | 76.3823 | 339 | 7 | 339 | 7 | 6 | 85.7143 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1776 | 96.3907 | 97.9775 | 74.4326 | 908 | 34 | 872 | 18 | 13 | 72.2222 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e1 | * | 97.7374 | 97.4983 | 97.9777 | 98.7042 | 1403 | 36 | 1405 | 29 | 10 | 34.4828 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.5863 | 99.2023 | 97.9779 | 71.0352 | 3731 | 30 | 3731 | 77 | 75 | 97.4026 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.5863 | 99.2023 | 97.9779 | 71.0352 | 3731 | 30 | 3731 | 77 | 75 | 97.4026 | |
| egarrison-hhga | INDEL | * | HG002complexvar | * | 97.4540 | 96.9352 | 97.9784 | 67.1267 | 74580 | 2358 | 74541 | 1538 | 1113 | 72.3667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9385 | 99.9175 | 97.9784 | 62.3961 | 3635 | 3 | 3635 | 75 | 73 | 97.3333 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9385 | 99.9175 | 97.9784 | 62.3961 | 3635 | 3 | 3635 | 75 | 73 | 97.3333 | |
| anovak-vg | SNP | tv | HG002complexvar | het | 97.4369 | 96.9012 | 97.9786 | 22.5474 | 146063 | 4671 | 144347 | 2978 | 2196 | 73.7408 | |
| 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 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9522 | 99.9450 | 97.9790 | 62.3287 | 3636 | 2 | 3636 | 75 | 74 | 98.6667 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.6888 | 99.4087 | 97.9793 | 56.5956 | 6052 | 36 | 6061 | 125 | 121 | 96.8000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.6173 | 95.2922 | 97.9798 | 63.9563 | 587 | 29 | 582 | 12 | 11 | 91.6667 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.7198 | 89.8148 | 97.9798 | 82.7526 | 97 | 11 | 97 | 2 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 96.4104 | 94.8905 | 97.9798 | 71.8750 | 390 | 21 | 388 | 8 | 8 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 86.9955 | 78.2258 | 97.9798 | 90.3131 | 97 | 27 | 97 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l125_m0_e0 | * | 97.8809 | 97.7823 | 97.9798 | 88.1437 | 485 | 11 | 485 | 10 | 3 | 30.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e1 | het | 98.5917 | 99.2114 | 97.9798 | 84.8890 | 1258 | 10 | 1261 | 26 | 4 | 15.3846 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 86.9955 | 78.2258 | 97.9798 | 90.7216 | 97 | 27 | 97 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.5174 | 95.0980 | 97.9798 | 60.8696 | 97 | 5 | 97 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.2392 | 98.5000 | 97.9798 | 61.4786 | 197 | 3 | 194 | 4 | 4 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.2317 | 98.4848 | 97.9798 | 85.9375 | 195 | 3 | 194 | 4 | 3 | 75.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l150_m2_e0 | homalt | 97.2431 | 96.5174 | 97.9798 | 85.0114 | 194 | 7 | 194 | 4 | 2 | 50.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.0639 | 76.7320 | 97.9798 | 69.7941 | 1174 | 356 | 1164 | 24 | 19 | 79.1667 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.0639 | 76.7320 | 97.9798 | 69.7941 | 1174 | 356 | 1164 | 24 | 19 | 79.1667 | |
| jmaeng-gatk | INDEL | D6_15 | * | het | 98.5809 | 99.1891 | 97.9801 | 63.8389 | 11498 | 94 | 11448 | 236 | 191 | 80.9322 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.8033 | 97.6268 | 97.9804 | 52.5687 | 10819 | 263 | 10819 | 223 | 219 | 98.2063 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.6450 | 99.3179 | 97.9812 | 73.0406 | 728 | 5 | 728 | 15 | 10 | 66.6667 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.7383 | 91.7031 | 97.9814 | 80.1296 | 630 | 57 | 631 | 13 | 8 | 61.5385 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.9636 | 95.9660 | 97.9821 | 72.0814 | 904 | 38 | 874 | 18 | 7 | 38.8889 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.4823 | 96.9868 | 97.9829 | 69.3497 | 2575 | 80 | 2526 | 52 | 40 | 76.9231 | |
| asubramanian-gatk | INDEL | * | map_siren | * | 93.9319 | 90.2024 | 97.9830 | 94.1412 | 6684 | 726 | 6704 | 138 | 23 | 16.6667 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.5930 | 99.2105 | 97.9830 | 63.7025 | 8294 | 66 | 8307 | 171 | 160 | 93.5673 | |