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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73501-73550 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6683 | 99.5308 | 99.8063 | 75.9886 | 3606 | 17 | 3606 | 7 | 5 | 71.4286 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1956 | 90.5120 | 98.1916 | 59.9330 | 3606 | 378 | 3638 | 67 | 32 | 47.7612 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9104 | 91.7791 | 94.0700 | 54.4828 | 3606 | 323 | 3601 | 227 | 215 | 94.7137 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7097 | 99.5308 | 99.8892 | 74.1552 | 3606 | 17 | 3606 | 4 | 1 | 25.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6822 | 99.5584 | 99.8063 | 74.0988 | 3607 | 16 | 3607 | 7 | 3 | 42.8571 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.0329 | 91.8045 | 94.2947 | 54.2066 | 3607 | 322 | 3603 | 218 | 214 | 98.1651 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5173 | 99.5860 | 99.4487 | 75.8037 | 3608 | 15 | 3608 | 20 | 9 | 45.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8226 | 97.8845 | 99.7788 | 48.7459 | 3609 | 78 | 3609 | 8 | 6 | 75.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.8618 | 90.5873 | 97.3819 | 58.7738 | 3609 | 375 | 3608 | 97 | 92 | 94.8454 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7958 | 97.9116 | 99.6962 | 48.3747 | 3610 | 77 | 3610 | 11 | 9 | 81.8182 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7100 | 99.6412 | 99.7789 | 75.9521 | 3610 | 13 | 3610 | 8 | 3 | 37.5000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7375 | 99.6412 | 99.8341 | 75.9622 | 3610 | 13 | 3610 | 6 | 3 | 50.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.3923 | 99.2303 | 97.5682 | 62.2540 | 3610 | 28 | 3611 | 90 | 84 | 93.3333 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2169 | 98.7151 | 99.7238 | 50.1102 | 3611 | 47 | 3611 | 10 | 4 | 40.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2442 | 98.7151 | 99.7789 | 49.7012 | 3611 | 47 | 3611 | 8 | 4 | 50.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2169 | 98.7151 | 99.7238 | 50.4244 | 3611 | 47 | 3611 | 10 | 3 | 30.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2444 | 98.7425 | 99.7514 | 50.7816 | 3612 | 46 | 3612 | 9 | 3 | 33.3333 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9050 | 97.9929 | 99.8342 | 48.4986 | 3613 | 74 | 3613 | 6 | 3 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.4117 | 94.9540 | 100.0000 | 30.3657 | 3613 | 192 | 3637 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1506 | 94.9540 | 99.4513 | 30.8218 | 3613 | 192 | 3625 | 20 | 19 | 95.0000 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | homalt | 48.2602 | 31.8102 | 99.9447 | 86.1579 | 3613 | 7745 | 3613 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | * | HG002compoundhet | het | 60.4981 | 88.2511 | 46.0244 | 58.9093 | 3613 | 481 | 4706 | 5519 | 5300 | 96.0319 | |
| jpowers-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 38.7027 | 35.8682 | 42.0236 | 64.3849 | 3613 | 6460 | 3601 | 4968 | 4896 | 98.5507 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6964 | 99.7792 | 99.6138 | 75.7541 | 3615 | 8 | 3611 | 14 | 6 | 42.8571 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7380 | 99.8068 | 99.6692 | 75.6445 | 3616 | 7 | 3616 | 12 | 6 | 50.0000 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7930 | 99.8068 | 99.7792 | 75.7754 | 3616 | 7 | 3616 | 8 | 3 | 37.5000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7204 | 98.1014 | 99.3473 | 45.8867 | 3617 | 70 | 3653 | 24 | 22 | 91.6667 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8068 | 99.8344 | 99.7793 | 75.9360 | 3617 | 6 | 3617 | 8 | 3 | 37.5000 | |
| jlack-gatk | INDEL | * | map_l100_m2_e0 | * | 95.3427 | 97.9691 | 92.8535 | 88.3944 | 3618 | 75 | 3625 | 279 | 28 | 10.0358 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9744 | 98.1557 | 99.8069 | 48.5309 | 3619 | 68 | 3619 | 7 | 4 | 57.1429 | |
| jmaeng-gatk | INDEL | * | map_l100_m2_e0 | * | 96.9371 | 97.9962 | 95.9006 | 89.1934 | 3619 | 74 | 3626 | 155 | 21 | 13.5484 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m2_e1 | * | 97.6390 | 96.3525 | 98.9603 | 79.8456 | 3619 | 137 | 3617 | 38 | 6 | 15.7895 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.0259 | 90.8384 | 97.4454 | 47.9934 | 3619 | 365 | 3700 | 97 | 76 | 78.3505 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9195 | 98.2099 | 99.6395 | 45.6518 | 3621 | 66 | 3593 | 13 | 7 | 53.8462 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.9409 | 98.7725 | 99.1098 | 44.1885 | 3621 | 45 | 3674 | 33 | 32 | 96.9697 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.0658 | 96.3042 | 97.8396 | 70.2140 | 3622 | 139 | 3623 | 80 | 65 | 81.2500 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.0658 | 96.3042 | 97.8396 | 70.2140 | 3622 | 139 | 3623 | 80 | 65 | 81.2500 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.1705 | 99.5602 | 96.8190 | 57.4112 | 3622 | 16 | 3622 | 119 | 117 | 98.3193 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | * | 98.4246 | 98.0774 | 98.7742 | 83.9477 | 3622 | 71 | 3626 | 45 | 15 | 33.3333 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.8288 | 92.9433 | 96.7925 | 52.5751 | 3622 | 275 | 4617 | 153 | 140 | 91.5033 | |
| cchapple-custom | INDEL | * | map_l100_m2_e1 | * | 95.9700 | 96.4324 | 95.5120 | 84.7746 | 3622 | 134 | 3703 | 174 | 52 | 29.8851 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.8001 | 98.8271 | 98.7732 | 47.1774 | 3623 | 43 | 3623 | 45 | 33 | 73.3333 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4647 | 99.0705 | 99.8621 | 50.6131 | 3624 | 34 | 3620 | 5 | 1 | 20.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 59.5875 | 61.0924 | 58.1549 | 41.9454 | 3624 | 2308 | 5623 | 4046 | 3831 | 94.6861 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9354 | 98.2913 | 99.5879 | 51.8136 | 3624 | 63 | 3625 | 15 | 11 | 73.3333 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5197 | 99.6701 | 99.3697 | 56.7552 | 3626 | 12 | 3626 | 23 | 21 | 91.3043 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.6596 | 99.6701 | 97.6694 | 53.9900 | 3626 | 12 | 3604 | 86 | 85 | 98.8372 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9148 | 91.0141 | 94.8966 | 61.7747 | 3626 | 358 | 3626 | 195 | 169 | 86.6667 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e1 | * | 97.1482 | 96.5389 | 97.7652 | 89.4752 | 3626 | 130 | 3631 | 83 | 16 | 19.2771 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.8822 | 98.9362 | 98.8283 | 47.8545 | 3627 | 39 | 3627 | 43 | 30 | 69.7674 | |