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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25951-26000 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | * | map_l125_m2_e0 | het | 95.3815 | 98.4903 | 92.4630 | 92.4771 | 1370 | 21 | 1374 | 112 | 7 | 6.2500 | |
| ckim-gatk | INDEL | * | map_l125_m2_e1 | het | 95.4354 | 98.5085 | 92.5482 | 92.5354 | 1387 | 21 | 1391 | 112 | 7 | 6.2500 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8218 | 97.2441 | 98.4064 | 67.2181 | 741 | 21 | 741 | 12 | 7 | 58.3333 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.7393 | 98.6981 | 98.7805 | 73.6869 | 1592 | 21 | 1539 | 19 | 14 | 73.6842 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0504 | 98.6372 | 99.4670 | 77.6637 | 1520 | 21 | 1493 | 8 | 2 | 25.0000 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7923 | 99.6650 | 99.9200 | 46.9810 | 6247 | 21 | 6247 | 5 | 3 | 60.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 87.5997 | 84.4444 | 91.0000 | 79.0356 | 114 | 21 | 91 | 9 | 8 | 88.8889 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8572 | 96.8468 | 98.8889 | 88.9182 | 645 | 21 | 623 | 7 | 2 | 28.5714 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.4441 | 94.9275 | 98.0100 | 72.9839 | 393 | 21 | 394 | 8 | 8 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8572 | 96.8468 | 98.8889 | 88.9182 | 645 | 21 | 623 | 7 | 2 | 28.5714 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.6521 | 97.7707 | 99.5495 | 74.2085 | 921 | 21 | 884 | 4 | 3 | 75.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1864 | 99.4416 | 98.9325 | 66.4187 | 3740 | 21 | 3707 | 40 | 40 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1864 | 99.4416 | 98.9325 | 66.4187 | 3740 | 21 | 3707 | 40 | 40 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | map_l125_m1_e0 | het | 95.7437 | 95.6790 | 95.8084 | 86.4814 | 465 | 21 | 480 | 21 | 5 | 23.8095 | |
| cchapple-custom | INDEL | I1_5 | map_l150_m2_e0 | * | 96.2251 | 95.9538 | 96.4981 | 89.5528 | 498 | 21 | 496 | 18 | 3 | 16.6667 | |
| cchapple-custom | INDEL | I1_5 | map_l150_m2_e1 | * | 96.3108 | 96.0452 | 96.5779 | 89.6130 | 510 | 21 | 508 | 18 | 3 | 16.6667 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.8610 | 91.4980 | 98.4807 | 64.9564 | 226 | 21 | 713 | 11 | 8 | 72.7273 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 86.5778 | 77.1739 | 98.5915 | 60.3352 | 71 | 21 | 70 | 1 | 1 | 100.0000 | |
| cchapple-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 90.7796 | 85.3147 | 96.9925 | 91.6614 | 122 | 21 | 129 | 4 | 2 | 50.0000 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3270 | 99.3199 | 99.3340 | 66.8350 | 3067 | 21 | 3132 | 21 | 9 | 42.8571 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0846 | 98.4716 | 99.7052 | 68.3462 | 1353 | 21 | 1353 | 4 | 2 | 50.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.1862 | 98.0000 | 98.3732 | 57.8969 | 1029 | 21 | 1028 | 17 | 10 | 58.8235 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 95.9712 | 94.0678 | 97.9532 | 66.6016 | 333 | 21 | 335 | 7 | 5 | 71.4286 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5292 | 99.4658 | 99.5927 | 55.2671 | 3910 | 21 | 3912 | 16 | 4 | 25.0000 | |
| egarrison-hhga | SNP | * | map_l150_m0_e0 | homalt | 99.6815 | 99.4864 | 99.8772 | 74.1921 | 4068 | 21 | 4068 | 5 | 5 | 100.0000 | |
| egarrison-hhga | SNP | * | map_l250_m1_e0 | homalt | 99.4705 | 99.1474 | 99.7957 | 86.3912 | 2442 | 21 | 2442 | 5 | 5 | 100.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 78.1345 | 68.1818 | 91.4894 | 92.2056 | 45 | 21 | 43 | 4 | 3 | 75.0000 | |
| eyeh-varpipe | INDEL | * | map_l125_m1_e0 | homalt | 97.0129 | 97.1311 | 96.8950 | 86.7449 | 711 | 21 | 1061 | 34 | 31 | 91.1765 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e0 | homalt | 96.9360 | 97.2477 | 96.6263 | 87.0809 | 742 | 21 | 1117 | 39 | 35 | 89.7436 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e1 | homalt | 96.9786 | 97.2868 | 96.6724 | 87.1688 | 753 | 21 | 1133 | 39 | 35 | 89.7436 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 87.9412 | 81.2500 | 95.8333 | 63.6364 | 91 | 21 | 92 | 4 | 3 | 75.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 96.2076 | 93.2907 | 99.3127 | 27.2500 | 292 | 21 | 289 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l250_m1_e0 | het | 78.7879 | 65.0000 | 100.0000 | 97.5549 | 39 | 21 | 39 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 81.5179 | 74.0741 | 90.6250 | 67.6768 | 60 | 21 | 58 | 6 | 2 | 33.3333 | |
| egarrison-hhga | INDEL | D16_PLUS | map_l100_m1_e0 | * | 79.1409 | 75.8621 | 82.7160 | 87.3635 | 66 | 21 | 67 | 14 | 11 | 78.5714 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 80.5492 | 69.5652 | 95.6522 | 68.7075 | 48 | 21 | 44 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 72.7273 | 57.1429 | 100.0000 | 27.0270 | 28 | 21 | 27 | 0 | 0 | ||
| egarrison-hhga | INDEL | D1_5 | map_l100_m0_e0 | * | 97.7365 | 97.5666 | 97.9070 | 84.8485 | 842 | 21 | 842 | 18 | 4 | 22.2222 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m1_e0 | het | 98.0207 | 98.2630 | 97.7796 | 82.5011 | 1188 | 21 | 1189 | 27 | 7 | 25.9259 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m2_e0 | het | 98.0946 | 98.3280 | 97.8622 | 83.1891 | 1235 | 21 | 1236 | 27 | 7 | 25.9259 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m2_e1 | het | 98.0355 | 98.3438 | 97.7291 | 83.2875 | 1247 | 21 | 1248 | 29 | 8 | 27.5862 | |
| egarrison-hhga | INDEL | D6_15 | segdup | hetalt | 72.7273 | 57.1429 | 100.0000 | 90.1141 | 28 | 21 | 26 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l100_m0_e0 | * | 53.3333 | 36.3636 | 100.0000 | 94.2857 | 12 | 21 | 12 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l125_m1_e0 | het | 46.1538 | 30.0000 | 100.0000 | 96.7611 | 9 | 21 | 8 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l125_m2_e0 | het | 46.1538 | 30.0000 | 100.0000 | 97.0803 | 9 | 21 | 8 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l125_m2_e1 | het | 46.1538 | 30.0000 | 100.0000 | 97.1326 | 9 | 21 | 8 | 0 | 0 | ||
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 63.4921 | 48.7805 | 90.9091 | 88.2353 | 20 | 21 | 20 | 2 | 2 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 54.9020 | 40.0000 | 87.5000 | 88.3212 | 14 | 21 | 14 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6165 | 99.4259 | 99.8079 | 54.6157 | 3637 | 21 | 3636 | 7 | 2 | 28.5714 | |
| dgrover-gatk | INDEL | * | HG002complexvar | homalt | 99.7765 | 99.9223 | 99.6312 | 57.3581 | 27006 | 21 | 27016 | 100 | 96 | 96.0000 | |