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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
39951-40000 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 89.8955 | 81.6456 | 100.0000 | 37.2822 | 516 | 116 | 540 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 88.3660 | 81.6425 | 96.2963 | 68.1777 | 338 | 76 | 338 | 13 | 13 | 100.0000 | |
| qzeng-custom | INDEL | I6_15 | map_siren | * | 71.0638 | 81.6393 | 62.9139 | 77.5520 | 249 | 56 | 285 | 168 | 8 | 4.7619 | |
| gduggal-bwafb | INDEL | I6_15 | map_siren | * | 89.4095 | 81.6393 | 98.8142 | 76.5306 | 249 | 56 | 250 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 87.3112 | 81.6384 | 93.8312 | 58.9880 | 289 | 65 | 289 | 19 | 5 | 26.3158 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 89.8876 | 81.6327 | 100.0000 | 31.0345 | 40 | 9 | 20 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D6_15 | segdup | hetalt | 89.8876 | 81.6327 | 100.0000 | 90.3509 | 40 | 9 | 11 | 0 | 0 | ||
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 58.1410 | 81.6327 | 45.1485 | 57.8816 | 400 | 90 | 228 | 277 | 270 | 97.4729 | |
| qzeng-custom | INDEL | D6_15 | segdup | hetalt | 0.0000 | 81.6327 | 0.0000 | 0.0000 | 40 | 9 | 0 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 77.9762 | 81.6286 | 74.6367 | 40.5656 | 3328 | 749 | 4314 | 1466 | 1261 | 86.0164 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e1 | het | 85.1359 | 81.6246 | 88.9630 | 91.9002 | 1035 | 233 | 1201 | 149 | 28 | 18.7919 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e1 | homalt | 88.9945 | 81.6129 | 97.8441 | 87.0712 | 506 | 114 | 590 | 13 | 1 | 7.6923 | |
| anovak-vg | SNP | ti | map_l250_m1_e0 | * | 74.8997 | 81.6117 | 69.2079 | 91.2986 | 3737 | 842 | 3722 | 1656 | 368 | 22.2222 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 87.8267 | 81.6103 | 95.0682 | 57.7013 | 13633 | 3072 | 3971 | 206 | 202 | 98.0583 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 87.8267 | 81.6103 | 95.0682 | 57.7013 | 13633 | 3072 | 3971 | 206 | 202 | 98.0583 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 89.8734 | 81.6092 | 100.0000 | 99.8937 | 71 | 16 | 73 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D16_PLUS | map_l100_m1_e0 | * | 88.6660 | 81.6092 | 97.0588 | 84.4037 | 71 | 16 | 66 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 45.6361 | 81.6092 | 31.6742 | 99.7077 | 71 | 16 | 70 | 151 | 4 | 2.6490 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.3082 | 81.6092 | 98.6111 | 83.0588 | 71 | 16 | 71 | 1 | 1 | 100.0000 | |
| qzeng-custom | INDEL | D16_PLUS | map_l100_m1_e0 | * | 36.3200 | 81.6092 | 23.3577 | 88.6542 | 71 | 16 | 64 | 210 | 1 | 0.4762 | |
| ndellapenna-hhga | INDEL | D16_PLUS | map_l100_m1_e0 | * | 83.6913 | 81.6092 | 85.8824 | 87.5549 | 71 | 16 | 73 | 12 | 6 | 50.0000 | |
| gduggal-bwafb | INDEL | * | HG002compoundhet | * | 86.4141 | 81.5955 | 91.8376 | 53.1940 | 24446 | 5514 | 37872 | 3366 | 3207 | 95.2763 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 89.1696 | 81.5951 | 98.2942 | 69.4959 | 931 | 210 | 922 | 16 | 16 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 84.4279 | 81.5933 | 87.4666 | 33.3286 | 20023 | 4517 | 20601 | 2952 | 2912 | 98.6450 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 65.1883 | 81.5920 | 54.2763 | 83.4962 | 164 | 37 | 165 | 139 | 136 | 97.8417 | |
| ckim-gatk | SNP | * | map_l125_m2_e0 | het | 88.5829 | 81.5915 | 96.8846 | 87.2138 | 23921 | 5397 | 23915 | 769 | 55 | 7.1522 | |
| gduggal-snapplat | SNP | * | map_l150_m0_e0 | homalt | 89.7981 | 81.5847 | 99.8503 | 78.9397 | 3336 | 753 | 3336 | 5 | 5 | 100.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 87.7109 | 81.5789 | 94.8396 | 65.2279 | 682 | 154 | 680 | 37 | 31 | 83.7838 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 53.0788 | 81.5710 | 39.3382 | 71.0021 | 540 | 122 | 642 | 990 | 87 | 8.7879 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.4868 | 81.5589 | 85.5080 | 68.6930 | 3317 | 750 | 3316 | 562 | 522 | 92.8826 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e0 | het | 88.4835 | 81.5574 | 96.6953 | 87.4762 | 23911 | 5407 | 23905 | 817 | 51 | 6.2424 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m1_e0 | het | 85.1353 | 81.5550 | 89.0443 | 91.4683 | 986 | 223 | 1146 | 141 | 27 | 19.1489 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002complexvar | homalt | 87.5090 | 81.5534 | 94.4030 | 66.1616 | 252 | 57 | 253 | 15 | 14 | 93.3333 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e0 | homalt | 87.5010 | 81.5443 | 94.3966 | 88.3212 | 433 | 98 | 438 | 26 | 1 | 3.8462 | |
| mlin-fermikit | INDEL | D6_15 | map_siren | homalt | 82.5533 | 81.5385 | 83.5938 | 87.3892 | 106 | 24 | 107 | 21 | 20 | 95.2381 | |
| qzeng-custom | INDEL | * | segdup | hetalt | 89.8305 | 81.5385 | 100.0000 | 96.1039 | 106 | 24 | 24 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 89.2857 | 81.5217 | 98.6842 | 59.5745 | 75 | 17 | 75 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.4671 | 81.5166 | 99.1361 | 72.5927 | 1376 | 312 | 1377 | 12 | 10 | 83.3333 | |
| mlin-fermikit | INDEL | * | map_siren | homalt | 84.6161 | 81.5066 | 87.9724 | 79.3852 | 2164 | 491 | 2165 | 296 | 264 | 89.1892 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 84.6555 | 81.5055 | 88.0587 | 71.2392 | 1256 | 285 | 1261 | 171 | 87 | 50.8772 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.1713 | 81.5015 | 91.4087 | 79.3482 | 28867 | 6552 | 28940 | 2720 | 211 | 7.7574 | |
| gduggal-bwavard | SNP | ti | HG002compoundhet | * | 84.8363 | 81.4967 | 88.4613 | 41.1291 | 14244 | 3234 | 14298 | 1865 | 1554 | 83.3244 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 89.0761 | 81.4952 | 98.2120 | 71.9556 | 1537 | 349 | 1538 | 28 | 27 | 96.4286 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 62.4468 | 81.4917 | 50.6173 | 72.8005 | 295 | 67 | 205 | 200 | 199 | 99.5000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 89.5684 | 81.4873 | 99.4286 | 37.8698 | 515 | 117 | 522 | 3 | 3 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 73.1635 | 81.4815 | 66.3866 | 60.7261 | 88 | 20 | 158 | 80 | 21 | 26.2500 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 87.7230 | 81.4815 | 95.0000 | 91.0714 | 22 | 5 | 19 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 73.3333 | 81.4815 | 66.6667 | 96.8750 | 22 | 5 | 2 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 82.3970 | 81.4815 | 83.3333 | 78.7402 | 110 | 25 | 90 | 18 | 17 | 94.4444 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 89.7959 | 81.4815 | 100.0000 | 92.4528 | 22 | 5 | 20 | 0 | 0 | ||