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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11951-12000 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 84.1642 | 83.2621 | 85.0860 | 71.1301 | 31558 | 6344 | 32017 | 5612 | 5145 | 91.6785 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.2264 | 100.0000 | 92.7273 | 77.4590 | 153 | 0 | 153 | 12 | 11 | 91.6667 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 93.8354 | 92.2330 | 95.4944 | 66.5970 | 760 | 64 | 763 | 36 | 33 | 91.6667 | |
| egarrison-hhga | INDEL | I1_5 | HG002compoundhet | hetalt | 97.3530 | 95.2492 | 99.5519 | 56.2316 | 10646 | 531 | 10663 | 48 | 44 | 91.6667 | |
| ckim-vqsr | INDEL | D6_15 | HG002complexvar | homalt | 99.4466 | 99.9145 | 98.9831 | 63.0094 | 1168 | 1 | 1168 | 12 | 11 | 91.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5688 | 99.2675 | 97.8799 | 72.6755 | 5556 | 41 | 5540 | 120 | 110 | 91.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.6667 | 99.0244 | 94.4186 | 91.1777 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.6667 | 99.0244 | 94.4186 | 91.1777 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.5915 | 99.5935 | 97.6096 | 62.3406 | 490 | 2 | 490 | 12 | 11 | 91.6667 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.3859 | 89.8140 | 99.4483 | 30.8646 | 2125 | 241 | 2163 | 12 | 11 | 91.6667 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.6549 | 93.9583 | 97.4138 | 82.6607 | 451 | 29 | 452 | 12 | 11 | 91.6667 | |
| eyeh-varpipe | INDEL | C1_5 | * | hetalt | 93.8017 | 100.0000 | 88.3268 | 93.7870 | 1 | 0 | 454 | 60 | 55 | 91.6667 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 85.4276 | 75.0062 | 99.2121 | 42.1023 | 3022 | 1007 | 3022 | 24 | 22 | 91.6667 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 68.4366 | 54.9763 | 90.6250 | 82.2960 | 116 | 95 | 116 | 12 | 11 | 91.6667 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 75.1438 | 70.5882 | 80.3279 | 96.6630 | 48 | 20 | 49 | 12 | 11 | 91.6667 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 81.1166 | 86.3636 | 76.4706 | 96.8460 | 38 | 6 | 39 | 12 | 11 | 91.6667 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 58.4346 | 41.3660 | 99.4845 | 45.9233 | 2350 | 3331 | 2316 | 12 | 11 | 91.6667 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 56.0471 | 39.0837 | 99.0276 | 46.9019 | 1237 | 1928 | 1222 | 12 | 11 | 91.6667 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 27.7333 | 20.3358 | 43.5897 | 65.7895 | 109 | 427 | 102 | 132 | 121 | 91.6667 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 34.2857 | 26.0870 | 50.0000 | 38.4615 | 12 | 34 | 12 | 12 | 11 | 91.6667 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e0 | homalt | 74.5239 | 83.0769 | 67.5676 | 84.9389 | 54 | 11 | 75 | 36 | 33 | 91.6667 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 0.0000 | 0.0000 | 70.0000 | 99.9063 | 0 | 0 | 28 | 12 | 11 | 91.6667 | |
| eyeh-varpipe | INDEL | I6_15 | map_siren | * | 77.9593 | 69.5082 | 88.7500 | 73.3555 | 212 | 93 | 284 | 36 | 33 | 91.6667 | |
| eyeh-varpipe | SNP | tv | HG002complexvar | hetalt | 99.6700 | 99.6774 | 99.6626 | 29.8422 | 309 | 1 | 3545 | 12 | 11 | 91.6667 | |
| gduggal-bwafb | INDEL | * | segdup | homalt | 98.7493 | 98.7500 | 98.7487 | 93.7209 | 948 | 12 | 947 | 12 | 11 | 91.6667 | |
| gduggal-bwafb | INDEL | D16_PLUS | HG002complexvar | het | 83.6409 | 73.8031 | 96.5049 | 50.3136 | 817 | 290 | 994 | 36 | 33 | 91.6667 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 53.3784 | 38.5366 | 86.8132 | 64.4531 | 79 | 126 | 79 | 12 | 11 | 91.6667 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 53.3784 | 38.5366 | 86.8132 | 64.4531 | 79 | 126 | 79 | 12 | 11 | 91.6667 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 89.0400 | 86.8852 | 91.3043 | 57.9268 | 106 | 16 | 126 | 12 | 11 | 91.6667 | |
| gduggal-bwaplat | INDEL | D16_PLUS | * | hetalt | 80.2709 | 67.4599 | 99.0881 | 50.5635 | 1304 | 629 | 1304 | 12 | 11 | 91.6667 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 80.2465 | 67.4262 | 99.0868 | 50.5085 | 1302 | 629 | 1302 | 12 | 11 | 91.6667 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.0162 | 71.4904 | 98.9726 | 45.1128 | 1156 | 461 | 1156 | 12 | 11 | 91.6667 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 82.5318 | 70.7702 | 98.9822 | 46.3359 | 1167 | 482 | 1167 | 12 | 11 | 91.6667 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 80.2465 | 67.4262 | 99.0868 | 50.5085 | 1302 | 629 | 1302 | 12 | 11 | 91.6667 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 89.4563 | 82.1519 | 98.1864 | 56.4502 | 1947 | 423 | 1949 | 36 | 33 | 91.6667 | |
| asubramanian-gatk | SNP | ti | * | homalt | 98.9721 | 97.9680 | 99.9969 | 16.0441 | 786720 | 16318 | 786711 | 24 | 22 | 91.6667 | |
| anovak-vg | INDEL | D1_5 | map_l100_m0_e0 | homalt | 86.0971 | 79.0698 | 94.4954 | 84.8401 | 204 | 54 | 206 | 12 | 11 | 91.6667 | |
| astatham-gatk | SNP | ti | HG002compoundhet | het | 98.7553 | 97.6644 | 99.8709 | 39.9910 | 9283 | 222 | 9281 | 12 | 11 | 91.6667 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 95.0943 | 99.2126 | 91.3043 | 54.0000 | 126 | 1 | 126 | 12 | 11 | 91.6667 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2803 | 99.4811 | 99.0803 | 50.1719 | 10353 | 54 | 10342 | 96 | 88 | 91.6667 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.2264 | 100.0000 | 92.7273 | 77.1468 | 153 | 0 | 153 | 12 | 11 | 91.6667 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.0766 | 96.6507 | 99.5451 | 88.1460 | 2626 | 91 | 2626 | 12 | 11 | 91.6667 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9292 | 99.9646 | 99.8938 | 56.3468 | 11292 | 4 | 11292 | 12 | 11 | 91.6667 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.2264 | 100.0000 | 92.7273 | 77.4590 | 153 | 0 | 153 | 12 | 11 | 91.6667 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.4720 | 99.4510 | 99.4930 | 87.3253 | 2355 | 13 | 2355 | 12 | 11 | 91.6667 | |
| bgallagher-sentieon | INDEL | D1_5 | HG002complexvar | homalt | 99.8445 | 99.9151 | 99.7740 | 60.1815 | 10589 | 9 | 10594 | 24 | 22 | 91.6667 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.2241 | 87.7430 | 99.4356 | 30.6136 | 2076 | 290 | 2114 | 12 | 11 | 91.6667 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5086 | 99.3568 | 97.6748 | 72.1675 | 5561 | 36 | 5545 | 132 | 121 | 91.6667 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.2234 | 91.3356 | 99.4570 | 29.5056 | 2161 | 205 | 2198 | 12 | 11 | 91.6667 | |
| jpowers-varprowl | INDEL | D16_PLUS | HG002complexvar | homalt | 80.0982 | 75.0865 | 85.8268 | 71.4607 | 217 | 72 | 218 | 36 | 33 | 91.6667 | |