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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63801-63850 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D1_5 | HG002complexvar | homalt | 99.8963 | 99.9245 | 99.8680 | 60.1555 | 10590 | 8 | 10595 | 14 | 12 | 85.7143 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.0772 | 97.3214 | 98.8449 | 61.5726 | 1199 | 33 | 1198 | 14 | 12 | 85.7143 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 98.1921 | 98.3264 | 98.0583 | 89.8594 | 705 | 12 | 707 | 14 | 3 | 21.4286 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e0 | * | 98.3008 | 98.4273 | 98.1747 | 90.2973 | 751 | 12 | 753 | 14 | 3 | 21.4286 | |
| dgrover-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.4048 | 100.0000 | 98.8166 | 62.8338 | 1169 | 0 | 1169 | 14 | 14 | 100.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 91.1683 | 84.8517 | 98.5011 | 38.5122 | 801 | 143 | 920 | 14 | 14 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 83.2773 | 71.8970 | 98.9378 | 35.0419 | 1228 | 480 | 1304 | 14 | 10 | 71.4286 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 76.1905 | 62.8659 | 96.6825 | 50.9872 | 408 | 241 | 408 | 14 | 13 | 92.8571 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 85.8676 | 81.3559 | 90.9091 | 64.8402 | 144 | 33 | 140 | 14 | 3 | 21.4286 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.7195 | 94.2517 | 99.3201 | 38.1124 | 1820 | 111 | 2045 | 14 | 14 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.7195 | 94.2517 | 99.3201 | 38.1124 | 1820 | 111 | 2045 | 14 | 14 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.0772 | 97.3214 | 98.8449 | 61.2532 | 1199 | 33 | 1198 | 14 | 12 | 85.7143 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.0614 | 92.4309 | 97.8462 | 82.1967 | 635 | 52 | 636 | 14 | 12 | 85.7143 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3929 | 99.1153 | 99.6722 | 49.8944 | 4257 | 38 | 4257 | 14 | 3 | 21.4286 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7112 | 99.6472 | 99.7752 | 70.6918 | 6214 | 22 | 6214 | 14 | 12 | 85.7143 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7260 | 99.8005 | 99.6515 | 49.5605 | 4003 | 8 | 4003 | 14 | 2 | 14.2857 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6469 | 99.8428 | 99.4518 | 52.6335 | 2540 | 4 | 2540 | 14 | 2 | 14.2857 | |
| 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 | map_l150_m1_e0 | * | 97.9763 | 97.9079 | 98.0447 | 88.3293 | 702 | 15 | 702 | 14 | 4 | 28.5714 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m2_e0 | * | 98.0984 | 98.0341 | 98.1627 | 88.9051 | 748 | 15 | 748 | 14 | 4 | 28.5714 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m2_e1 | * | 98.1350 | 98.0720 | 98.1982 | 88.9000 | 763 | 15 | 763 | 14 | 4 | 28.5714 | |
| egarrison-hhga | INDEL | D6_15 | map_l100_m1_e0 | het | 94.2063 | 98.4127 | 90.3448 | 86.6236 | 124 | 2 | 131 | 14 | 9 | 64.2857 | |
| egarrison-hhga | INDEL | D6_15 | map_l100_m2_e0 | het | 94.4089 | 98.4733 | 90.6667 | 87.1023 | 129 | 2 | 136 | 14 | 9 | 64.2857 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 85.7593 | 76.8439 | 97.0149 | 63.3307 | 448 | 135 | 455 | 14 | 12 | 85.7143 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.6884 | 81.9549 | 87.6106 | 84.2399 | 109 | 24 | 99 | 14 | 7 | 50.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.5832 | 87.5139 | 98.2759 | 42.2886 | 785 | 112 | 798 | 14 | 12 | 85.7143 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.3381 | 97.7256 | 98.9583 | 75.2486 | 1332 | 31 | 1330 | 14 | 5 | 35.7143 | |
| ckim-isaac | SNP | * | segdup | * | 98.2480 | 96.6046 | 99.9484 | 87.4705 | 27114 | 953 | 27116 | 14 | 7 | 50.0000 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.3003 | 96.8730 | 99.7704 | 41.9223 | 6072 | 196 | 6083 | 14 | 11 | 78.5714 | |
| ckim-isaac | SNP | ti | map_l250_m2_e0 | * | 66.8081 | 50.2995 | 99.4473 | 90.8038 | 2519 | 2489 | 2519 | 14 | 3 | 21.4286 | |
| ckim-isaac | SNP | ti | map_l250_m2_e1 | * | 66.8585 | 50.3546 | 99.4553 | 90.8557 | 2556 | 2520 | 2556 | 14 | 3 | 21.4286 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.8288 | 94.8353 | 98.9080 | 47.7162 | 1267 | 69 | 1268 | 14 | 7 | 50.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9026 | 99.9292 | 99.8761 | 56.3916 | 11288 | 8 | 11288 | 14 | 13 | 92.8571 | |
| ckim-vqsr | INDEL | D16_PLUS | * | hetalt | 96.6957 | 94.2059 | 99.3207 | 38.1824 | 1821 | 112 | 2047 | 14 | 14 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | HG002complexvar | hetalt | 93.2896 | 89.8785 | 96.9697 | 47.4403 | 222 | 25 | 448 | 14 | 14 | 100.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.0727 | 94.3231 | 97.8884 | 82.5020 | 648 | 39 | 649 | 14 | 11 | 78.5714 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.1228 | 96.5257 | 97.7273 | 78.8316 | 639 | 23 | 602 | 14 | 8 | 57.1429 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2662 | 99.3541 | 99.1784 | 74.9780 | 1692 | 11 | 1690 | 14 | 3 | 21.4286 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.3736 | 99.2639 | 99.4836 | 88.1512 | 2697 | 20 | 2697 | 14 | 13 | 92.8571 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.3490 | 99.4898 | 99.2086 | 89.1572 | 1755 | 9 | 1755 | 14 | 13 | 92.8571 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8051 | 99.9133 | 99.6971 | 35.6178 | 4612 | 4 | 4608 | 14 | 2 | 14.2857 | |
| dgrover-gatk | SNP | * | map_l150_m1_e0 | homalt | 99.5103 | 99.1484 | 99.8749 | 68.8906 | 11177 | 96 | 11177 | 14 | 10 | 71.4286 | |
| dgrover-gatk | SNP | * | map_l150_m2_e0 | homalt | 99.5153 | 99.1538 | 99.8795 | 71.2083 | 11600 | 99 | 11600 | 14 | 10 | 71.4286 | |
| dgrover-gatk | SNP | * | map_l150_m2_e1 | homalt | 99.5206 | 99.1629 | 99.8808 | 71.2164 | 11728 | 99 | 11728 | 14 | 10 | 71.4286 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4249 | 99.3241 | 99.5259 | 48.4732 | 2939 | 20 | 2939 | 14 | 2 | 14.2857 | |
| egarrison-hhga | INDEL | * | map_l150_m0_e0 | het | 95.7536 | 95.6012 | 95.9064 | 92.1703 | 326 | 15 | 328 | 14 | 4 | 28.5714 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.4556 | 97.2727 | 95.6522 | 75.6061 | 321 | 9 | 308 | 14 | 8 | 57.1429 | |
| bgallagher-sentieon | INDEL | I16_PLUS | HG002complexvar | * | 98.3871 | 97.8610 | 98.9189 | 67.3392 | 1281 | 28 | 1281 | 14 | 14 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.5306 | 93.3042 | 97.8659 | 82.3181 | 641 | 46 | 642 | 14 | 11 | 78.5714 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | * | 98.9183 | 98.8798 | 98.9568 | 83.1237 | 1324 | 15 | 1328 | 14 | 4 | 28.5714 | |