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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
35351-35400 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 88.1401 | 80.0632 | 98.0294 | 59.0247 | 2534 | 631 | 2537 | 51 | 48 | 94.1176 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.1356 | 95.1220 | 82.1053 | 75.7653 | 78 | 4 | 78 | 17 | 17 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m0_e0 | * | 88.1356 | 92.8571 | 83.8710 | 97.1001 | 26 | 2 | 26 | 5 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 88.1356 | 78.7879 | 100.0000 | 55.9322 | 26 | 7 | 26 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 88.1349 | 97.1942 | 80.6205 | 57.4187 | 13371 | 386 | 13903 | 3342 | 3177 | 95.0628 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 88.1349 | 97.1942 | 80.6205 | 57.4187 | 13371 | 386 | 13903 | 3342 | 3177 | 95.0628 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 88.1323 | 79.3116 | 99.1606 | 35.6652 | 11129 | 2903 | 2599 | 22 | 19 | 86.3636 | |
| gduggal-bwaplat | INDEL | I1_5 | map_siren | het | 88.1317 | 79.2980 | 99.1803 | 89.9363 | 1333 | 348 | 1331 | 11 | 5 | 45.4545 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 88.1261 | 88.9650 | 87.3028 | 53.9810 | 15721 | 1950 | 17045 | 2479 | 1231 | 49.6571 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 88.1261 | 88.9650 | 87.3028 | 53.9810 | 15721 | 1950 | 17045 | 2479 | 1231 | 49.6571 | |
| qzeng-custom | INDEL | D6_15 | HG002compoundhet | het | 88.1260 | 94.5093 | 82.5504 | 31.0108 | 809 | 47 | 8558 | 1809 | 764 | 42.2333 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 88.1251 | 98.2495 | 79.8925 | 44.0994 | 2245 | 40 | 2229 | 561 | 501 | 89.3048 | |
| gduggal-snapplat | INDEL | D1_5 | HG002complexvar | homalt | 88.1224 | 84.5537 | 92.0057 | 61.9576 | 8961 | 1637 | 10381 | 902 | 472 | 52.3282 | |
| asubramanian-gatk | INDEL | I1_5 | map_l250_m1_e0 | * | 88.1188 | 83.9623 | 92.7083 | 97.0525 | 89 | 17 | 89 | 7 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | ti | map_l250_m1_e0 | homalt | 88.1167 | 78.9048 | 99.7638 | 88.2047 | 1268 | 339 | 1267 | 3 | 3 | 100.0000 | |
| ckim-isaac | SNP | ti | map_siren | het | 88.1134 | 78.8433 | 99.8538 | 52.2793 | 49184 | 13198 | 49191 | 72 | 6 | 8.3333 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.1125 | 83.1756 | 93.6725 | 88.6078 | 791 | 160 | 755 | 51 | 22 | 43.1373 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 88.1005 | 80.0000 | 98.0263 | 81.2243 | 428 | 107 | 1341 | 27 | 27 | 100.0000 | |
| qzeng-custom | SNP | ti | map_l100_m2_e1 | homalt | 88.0999 | 79.0797 | 99.4428 | 59.4081 | 14625 | 3869 | 14457 | 81 | 75 | 92.5926 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.0992 | 92.7022 | 83.9316 | 81.2018 | 470 | 37 | 491 | 94 | 76 | 80.8511 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m2_e1 | * | 88.0989 | 95.5920 | 81.6951 | 88.4146 | 1106 | 51 | 1388 | 311 | 102 | 32.7974 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.0966 | 87.6813 | 88.5158 | 38.7217 | 21517 | 3023 | 21589 | 2801 | 2559 | 91.3602 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 88.0965 | 85.1064 | 91.3043 | 75.1351 | 40 | 7 | 42 | 4 | 2 | 50.0000 | |
| ckim-isaac | INDEL | I6_15 | segdup | homalt | 88.0952 | 78.7234 | 100.0000 | 87.9870 | 37 | 10 | 37 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D1_5 | map_l125_m2_e0 | * | 88.0937 | 95.6255 | 81.6617 | 88.2856 | 1093 | 50 | 1376 | 309 | 102 | 33.0097 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 88.0893 | 78.8037 | 99.8556 | 25.8168 | 3175 | 854 | 1383 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | * | map_l150_m0_e0 | het | 88.0882 | 97.0674 | 80.6295 | 94.9157 | 331 | 10 | 333 | 80 | 1 | 1.2500 | |
| ltrigg-rtg2 | INDEL | C1_5 | * | het | 88.0848 | 88.8889 | 87.2951 | 96.3468 | 8 | 1 | 426 | 62 | 2 | 3.2258 | |
| gduggal-bwafb | INDEL | D6_15 | map_l100_m2_e1 | * | 88.0846 | 80.3636 | 97.4468 | 85.8519 | 221 | 54 | 229 | 6 | 3 | 50.0000 | |
| gduggal-bwafb | INDEL | I6_15 | * | het | 88.0827 | 80.5342 | 97.1926 | 38.4775 | 8080 | 1953 | 13848 | 400 | 379 | 94.7500 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 88.0789 | 89.7382 | 86.4799 | 86.3258 | 2125 | 243 | 2130 | 333 | 219 | 65.7658 | |
| anovak-vg | SNP | * | map_l150_m2_e1 | homalt | 88.0784 | 79.1748 | 99.2382 | 72.9549 | 9364 | 2463 | 9249 | 71 | 59 | 83.0986 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 88.0775 | 95.1208 | 82.0053 | 38.4898 | 2047 | 105 | 3427 | 752 | 750 | 99.7340 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m2_e0 | het | 88.0766 | 95.8333 | 81.4815 | 96.7606 | 46 | 2 | 44 | 10 | 4 | 40.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_l100_m2_e0 | het | 88.0766 | 95.8333 | 81.4815 | 95.2590 | 46 | 2 | 44 | 10 | 3 | 30.0000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 88.0745 | 87.7173 | 88.4346 | 62.4232 | 757 | 106 | 757 | 99 | 93 | 93.9394 | |
| jlack-gatk | INDEL | I6_15 | map_l125_m1_e0 | * | 88.0734 | 90.5660 | 85.7143 | 92.6606 | 48 | 5 | 48 | 8 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l125_m2_e0 | * | 88.0734 | 90.5660 | 85.7143 | 93.5409 | 48 | 5 | 48 | 8 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l125_m2_e1 | * | 88.0734 | 90.5660 | 85.7143 | 93.7079 | 48 | 5 | 48 | 8 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.0734 | 81.3559 | 96.0000 | 63.2353 | 48 | 11 | 48 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 88.0734 | 78.6885 | 100.0000 | 52.4752 | 48 | 13 | 48 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 88.0734 | 78.6885 | 100.0000 | 54.2857 | 48 | 13 | 48 | 0 | 0 | ||
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 88.0734 | 78.6885 | 100.0000 | 52.4752 | 48 | 13 | 48 | 0 | 0 | ||
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 88.0705 | 92.7235 | 83.8622 | 38.1946 | 6193 | 486 | 6184 | 1190 | 1162 | 97.6471 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 88.0685 | 85.1768 | 91.1634 | 69.1509 | 2264 | 394 | 2249 | 218 | 103 | 47.2477 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 88.0678 | 85.5096 | 90.7838 | 68.5024 | 1074 | 182 | 1054 | 107 | 48 | 44.8598 | |
| ghariani-varprowl | INDEL | * | map_l150_m0_e0 | het | 88.0637 | 97.3607 | 80.3874 | 95.1486 | 332 | 9 | 332 | 81 | 18 | 22.2222 | |
| ciseli-custom | INDEL | I1_5 | HG002complexvar | homalt | 88.0614 | 87.4926 | 88.6376 | 45.0592 | 11766 | 1682 | 11522 | 1477 | 1282 | 86.7976 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.0582 | 79.0032 | 99.4576 | 57.3453 | 1490 | 396 | 1467 | 8 | 7 | 87.5000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 88.0509 | 79.0340 | 99.3902 | 32.6949 | 1440 | 382 | 1467 | 9 | 8 | 88.8889 | |