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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22601-22650 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.2565 | 95.0509 | 97.4930 | 80.7300 | 653 | 34 | 700 | 18 | 13 | 72.2222 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 94.8407 | 0.0000 | 0.0000 | 625 | 34 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | map_l100_m2_e1 | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 17 | 34 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 90.6611 | 90.9091 | 90.4145 | 54.4274 | 340 | 34 | 349 | 37 | 21 | 56.7568 | |
| anovak-vg | INDEL | D6_15 | map_l125_m2_e1 | * | 76.3524 | 73.4375 | 79.5082 | 88.8584 | 94 | 34 | 97 | 25 | 15 | 60.0000 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | het | 93.5851 | 96.0000 | 91.2888 | 86.8239 | 816 | 34 | 765 | 73 | 70 | 95.8904 | |
| asubramanian-gatk | INDEL | I1_5 | map_l100_m1_e0 | homalt | 96.4155 | 93.4363 | 99.5910 | 81.7265 | 484 | 34 | 487 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.9954 | 97.2403 | 98.7624 | 61.1289 | 1198 | 34 | 1197 | 15 | 13 | 86.6667 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9231 | 96.3983 | 99.4970 | 32.0574 | 910 | 34 | 989 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9660 | 98.1027 | 97.8297 | 69.4907 | 1758 | 34 | 1758 | 39 | 30 | 76.9231 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3336 | 99.1212 | 95.6094 | 68.5201 | 3835 | 34 | 3789 | 174 | 168 | 96.5517 | |
| anovak-vg | INDEL | I1_5 | map_l250_m1_e0 | het | 47.9644 | 43.3333 | 53.7037 | 97.5785 | 26 | 34 | 29 | 25 | 3 | 12.0000 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 84.4901 | 91.1227 | 78.7575 | 78.2666 | 349 | 34 | 393 | 106 | 92 | 86.7925 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6839 | 99.4502 | 99.9188 | 54.8820 | 6150 | 34 | 6150 | 5 | 0 | 0.0000 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0083 | 98.1431 | 99.8888 | 50.8470 | 1797 | 34 | 1797 | 2 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8165 | 99.6633 | 99.9702 | 61.6256 | 10063 | 34 | 10063 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7217 | 99.6990 | 99.7443 | 56.4874 | 11262 | 34 | 11313 | 29 | 10 | 34.4828 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.6506 | 91.7874 | 97.6982 | 73.9680 | 380 | 34 | 382 | 9 | 9 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4743 | 99.4428 | 99.5058 | 77.9305 | 6068 | 34 | 6040 | 30 | 14 | 46.6667 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.6139 | 90.0293 | 99.6904 | 56.8182 | 307 | 34 | 322 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.7427 | 95.4178 | 98.1050 | 71.1886 | 708 | 34 | 673 | 13 | 8 | 61.5385 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 77.3333 | 63.0435 | 100.0000 | 56.3910 | 58 | 34 | 58 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7146 | 97.7227 | 99.7268 | 32.9363 | 1459 | 34 | 1460 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.1084 | 98.7559 | 91.7206 | 61.9079 | 2699 | 34 | 2692 | 243 | 239 | 98.3539 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.7187 | 94.7933 | 98.7241 | 70.9453 | 619 | 34 | 619 | 8 | 8 | 100.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 92.7175 | 97.4908 | 88.3898 | 77.5276 | 1321 | 34 | 1279 | 168 | 162 | 96.4286 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.5683 | 96.1187 | 75.4960 | 75.8909 | 842 | 34 | 761 | 247 | 247 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | HG002complexvar | homalt | 99.9769 | 99.9643 | 99.9895 | 22.8756 | 95077 | 34 | 95069 | 10 | 9 | 90.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3261 | 97.7936 | 98.8644 | 77.1834 | 1507 | 34 | 1480 | 17 | 11 | 64.7059 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1776 | 96.3907 | 97.9775 | 74.4326 | 908 | 34 | 872 | 18 | 13 | 72.2222 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.3251 | 99.4893 | 99.1616 | 77.5985 | 6623 | 34 | 6623 | 56 | 11 | 19.6429 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4647 | 99.0705 | 99.8621 | 50.6131 | 3624 | 34 | 3620 | 5 | 1 | 20.0000 | |
| hfeng-pmm2 | SNP | * | map_l250_m0_e0 | * | 97.8575 | 98.4075 | 97.3136 | 93.5175 | 2101 | 34 | 2101 | 58 | 9 | 15.5172 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e0 | * | 98.5876 | 98.4517 | 98.7238 | 86.1051 | 2162 | 34 | 2166 | 28 | 6 | 21.4286 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.0781 | 96.4876 | 95.6720 | 82.3695 | 934 | 34 | 840 | 38 | 30 | 78.9474 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7481 | 97.7227 | 99.7952 | 31.6698 | 1459 | 34 | 1462 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.0123 | 94.7692 | 99.3641 | 23.2927 | 616 | 34 | 625 | 4 | 4 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.1661 | 96.3983 | 100.0000 | 32.3751 | 910 | 34 | 988 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.4624 | 99.5933 | 99.3319 | 58.5091 | 8326 | 34 | 8326 | 56 | 56 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.4624 | 99.5933 | 99.3319 | 58.5091 | 8326 | 34 | 8326 | 56 | 56 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2411 | 99.0960 | 99.3867 | 70.6527 | 3727 | 34 | 3727 | 23 | 22 | 95.6522 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2411 | 99.0960 | 99.3867 | 70.6527 | 3727 | 34 | 3727 | 23 | 22 | 95.6522 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 77.3333 | 63.0435 | 100.0000 | 58.2734 | 58 | 34 | 58 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5452 | 97.4262 | 99.6902 | 60.4957 | 1287 | 34 | 1287 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | SNP | * | map_l100_m0_e0 | homalt | 99.7374 | 99.7074 | 99.7675 | 63.8562 | 11586 | 34 | 11586 | 27 | 10 | 37.0370 | |
| hfeng-pmm1 | SNP | * | map_l250_m0_e0 | het | 97.8398 | 97.7424 | 97.9375 | 93.0288 | 1472 | 34 | 1472 | 31 | 4 | 12.9032 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8348 | 99.6884 | 99.9816 | 59.7111 | 10877 | 34 | 10874 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l100_m1_e0 | het | 98.0433 | 98.4787 | 97.6117 | 85.3524 | 2201 | 34 | 2207 | 54 | 7 | 12.9630 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.1661 | 96.3983 | 100.0000 | 32.2115 | 910 | 34 | 987 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 81.1947 | 74.8148 | 88.7640 | 73.9003 | 101 | 34 | 79 | 10 | 8 | 80.0000 | |