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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70001-70050 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | * | func_cds | het | 59.9589 | 51.8692 | 71.0383 | 65.2751 | 111 | 103 | 130 | 53 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.2066 | 99.0882 | 99.3253 | 55.9755 | 11193 | 103 | 11189 | 76 | 58 | 76.3158 | |
| gduggal-snapfb | INDEL | * | map_l150_m1_e0 | * | 93.3899 | 92.3019 | 94.5038 | 89.1529 | 1235 | 103 | 1238 | 72 | 21 | 29.1667 | |
| gduggal-bwavard | INDEL | * | map_l125_m1_e0 | * | 91.5570 | 95.1115 | 88.2586 | 89.4208 | 2004 | 103 | 2007 | 267 | 71 | 26.5918 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 86.4112 | 86.4829 | 86.3395 | 72.9555 | 659 | 103 | 651 | 103 | 64 | 62.1359 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 43.5112 | 89.2820 | 28.7648 | 54.7750 | 858 | 103 | 850 | 2105 | 2053 | 97.5297 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 93.9702 | 92.4431 | 95.5486 | 30.3243 | 1260 | 103 | 11269 | 525 | 504 | 96.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 78.9597 | 78.8934 | 79.0261 | 42.0187 | 385 | 103 | 2061 | 547 | 541 | 98.9031 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 60.7839 | 44.6237 | 95.2941 | 48.1707 | 83 | 103 | 81 | 4 | 4 | 100.0000 | |
| eyeh-varpipe | SNP | ti | map_l125_m2_e0 | * | 99.2792 | 99.6596 | 98.9018 | 74.7286 | 30155 | 103 | 29629 | 329 | 21 | 6.3830 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 35.7143 | 22.5564 | 85.7143 | 93.7500 | 30 | 103 | 30 | 5 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | segdup | * | 94.4660 | 90.2738 | 99.0664 | 96.2092 | 956 | 103 | 955 | 9 | 6 | 66.6667 | |
| gduggal-bwaplat | INDEL | I6_15 | map_siren | * | 79.0667 | 66.2295 | 98.0769 | 90.4236 | 202 | 103 | 204 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 64.6777 | 48.7562 | 96.0396 | 90.9091 | 98 | 103 | 97 | 4 | 0 | 0.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.3288 | 99.0403 | 97.6276 | 52.2232 | 10629 | 103 | 10658 | 259 | 68 | 26.2548 | |
| jmaeng-gatk | SNP | * | segdup | homalt | 99.4625 | 99.0412 | 99.8873 | 88.3992 | 10640 | 103 | 10640 | 12 | 12 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.0717 | 78.5417 | 97.6804 | 73.6054 | 377 | 103 | 379 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1121 | 98.7732 | 95.5059 | 60.7561 | 8293 | 103 | 8288 | 390 | 362 | 92.8205 | |
| rpoplin-dv42 | SNP | * | map_l250_m2_e1 | het | 98.1365 | 98.0433 | 98.2299 | 88.1941 | 5161 | 103 | 5161 | 93 | 57 | 61.2903 | |
| rpoplin-dv42 | SNP | ti | map_siren | homalt | 99.8060 | 99.7283 | 99.8838 | 52.4445 | 37813 | 103 | 37814 | 44 | 42 | 95.4545 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.2917 | 89.4359 | 99.7050 | 39.9291 | 872 | 103 | 1014 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | SNP | * | segdup | het | 99.4196 | 99.4052 | 99.4339 | 89.3885 | 17214 | 103 | 17214 | 98 | 4 | 4.0816 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.0385 | 86.3032 | 96.3235 | 58.6123 | 649 | 103 | 655 | 25 | 25 | 100.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 81.1730 | 89.2820 | 74.4143 | 49.8151 | 858 | 103 | 2827 | 972 | 485 | 49.8971 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m1_e0 | homalt | 80.9911 | 68.5015 | 99.0506 | 83.1197 | 224 | 103 | 313 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 70.3763 | 84.5113 | 60.2922 | 79.7798 | 562 | 103 | 454 | 299 | 278 | 92.9766 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 91.1134 | 93.7764 | 88.5975 | 54.4652 | 1552 | 103 | 1554 | 200 | 192 | 96.0000 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.7147 | 97.4166 | 98.0146 | 32.9344 | 3884 | 103 | 3900 | 79 | 74 | 93.6709 | |
| astatham-gatk | INDEL | * | map_l125_m2_e1 | het | 94.9130 | 92.6847 | 97.2511 | 89.9694 | 1305 | 103 | 1309 | 37 | 5 | 13.5135 | |
| astatham-gatk | SNP | ti | map_l125_m1_e0 | homalt | 99.4818 | 99.0675 | 99.8996 | 63.1497 | 10942 | 103 | 10942 | 11 | 10 | 90.9091 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5183 | 97.1076 | 97.9326 | 72.3189 | 3458 | 103 | 3458 | 73 | 57 | 78.0822 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 85.6343 | 78.9796 | 93.5135 | 45.7111 | 387 | 103 | 2249 | 156 | 148 | 94.8718 | |
| anovak-vg | INDEL | * | map_l125_m2_e0 | homalt | 76.4959 | 86.5007 | 68.5656 | 84.5197 | 660 | 103 | 674 | 309 | 283 | 91.5858 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 27.3104 | 23.7037 | 32.2115 | 41.0765 | 32 | 103 | 67 | 141 | 109 | 77.3050 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 81.4502 | 90.3104 | 74.1732 | 79.4532 | 960 | 103 | 942 | 328 | 70 | 21.3415 | |
| ciseli-custom | INDEL | D1_5 | segdup | * | 89.4589 | 90.6618 | 88.2875 | 95.2028 | 1000 | 103 | 995 | 132 | 80 | 60.6061 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 62.9322 | 68.7879 | 57.9952 | 52.5481 | 227 | 103 | 243 | 176 | 130 | 73.8636 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 32.1213 | 27.4648 | 38.6792 | 40.1130 | 39 | 103 | 41 | 65 | 65 | 100.0000 | |
| ciseli-custom | INDEL | I6_15 | map_siren | het | 39.1268 | 27.9720 | 65.0794 | 86.1842 | 40 | 103 | 41 | 22 | 21 | 95.4545 | |
| ckim-dragen | INDEL | D1_5 | HG002complexvar | hetalt | 94.4661 | 92.3817 | 96.6468 | 71.8658 | 1249 | 103 | 1297 | 45 | 45 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.3948 | 97.3583 | 97.4313 | 62.8424 | 3796 | 103 | 3793 | 100 | 40 | 40.0000 | |
| dgrover-gatk | SNP | tv | map_siren | het | 99.5269 | 99.6400 | 99.4140 | 62.9092 | 28506 | 103 | 28501 | 168 | 26 | 15.4762 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.2070 | 98.3037 | 98.1104 | 53.8870 | 5969 | 103 | 5971 | 115 | 80 | 69.5652 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.5535 | 97.1688 | 93.9910 | 58.3407 | 3535 | 103 | 3535 | 226 | 68 | 30.0885 | |
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | het | 99.0031 | 99.1673 | 98.8394 | 78.5331 | 12267 | 103 | 12263 | 144 | 13 | 9.0278 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.2919 | 89.4359 | 99.7056 | 40.6868 | 872 | 103 | 1016 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | * | map_l150_m0_e0 | * | 99.1727 | 99.1439 | 99.2015 | 79.7142 | 11929 | 103 | 11926 | 96 | 9 | 9.3750 | |
| hfeng-pmm3 | SNP | ti | map_l100_m0_e0 | het | 99.3735 | 99.2634 | 99.4838 | 69.6444 | 13880 | 103 | 13877 | 72 | 7 | 9.7222 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9326 | 97.1076 | 98.7718 | 67.6791 | 3458 | 103 | 3458 | 43 | 30 | 69.7674 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e1 | * | 98.8775 | 98.7104 | 99.0452 | 88.5497 | 7884 | 103 | 7884 | 76 | 17 | 22.3684 | |