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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63701-63750 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.8974 | 99.0244 | 94.8598 | 89.7066 | 203 | 2 | 203 | 11 | 9 | 81.8182 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.8974 | 99.0244 | 94.8598 | 91.2653 | 203 | 2 | 203 | 11 | 10 | 90.9091 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.8974 | 99.0244 | 94.8598 | 91.2653 | 203 | 2 | 203 | 11 | 10 | 90.9091 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.8974 | 96.3612 | 97.4395 | 71.6647 | 715 | 27 | 685 | 18 | 7 | 38.8889 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m2_e0 | het | 96.8975 | 98.1084 | 95.7160 | 90.3622 | 778 | 15 | 782 | 35 | 1 | 2.8571 | |
| gduggal-snapfb | SNP | tv | map_l125_m2_e1 | * | 96.8978 | 97.3224 | 96.4768 | 75.8806 | 16211 | 446 | 16211 | 592 | 214 | 36.1486 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8986 | 96.7532 | 97.0443 | 67.8288 | 596 | 20 | 591 | 18 | 16 | 88.8889 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e1 | * | 96.8991 | 98.3513 | 95.4892 | 87.8016 | 1372 | 23 | 1376 | 65 | 7 | 10.7692 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.8992 | 93.9850 | 100.0000 | 87.6557 | 125 | 8 | 109 | 0 | 0 | ||
| egarrison-hhga | INDEL | D6_15 | map_siren | homalt | 96.8992 | 96.1538 | 97.6562 | 81.7404 | 125 | 5 | 125 | 3 | 1 | 33.3333 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.9002 | 94.3962 | 99.5408 | 32.4909 | 9888 | 587 | 9971 | 46 | 46 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 96.9005 | 93.9873 | 100.0000 | 71.9133 | 297 | 19 | 298 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.9007 | 95.1331 | 98.7352 | 48.1982 | 1251 | 64 | 1249 | 16 | 11 | 68.7500 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.9007 | 94.0899 | 99.8846 | 27.3413 | 2595 | 163 | 2596 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | HG002complexvar | * | 96.9018 | 94.6813 | 99.2289 | 57.2443 | 5020 | 282 | 5019 | 39 | 37 | 94.8718 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.9023 | 98.2941 | 95.5493 | 68.7291 | 3803 | 66 | 3757 | 175 | 166 | 94.8571 | |
| raldana-dualsentieon | INDEL | * | map_l150_m2_e1 | het | 96.9025 | 96.3203 | 97.4918 | 88.7346 | 890 | 34 | 894 | 23 | 2 | 8.6957 | |
| jmaeng-gatk | INDEL | * | map_l100_m1_e0 | * | 96.9028 | 98.0201 | 95.8107 | 88.4970 | 3515 | 71 | 3522 | 154 | 21 | 13.6364 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m0_e0 | * | 96.9035 | 95.2118 | 98.6564 | 78.2917 | 517 | 26 | 514 | 7 | 3 | 42.8571 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.9036 | 99.8930 | 94.0880 | 54.4523 | 2801 | 3 | 2801 | 176 | 175 | 99.4318 | |
| gduggal-bwavard | INDEL | I1_5 | map_siren | homalt | 96.9037 | 94.3069 | 99.6476 | 66.3105 | 1143 | 69 | 1131 | 4 | 2 | 50.0000 | |
| gduggal-snapplat | SNP | tv | HG002complexvar | het | 96.9038 | 96.2928 | 97.5225 | 28.0304 | 145146 | 5588 | 145527 | 3697 | 526 | 14.2278 | |
| jpowers-varprowl | SNP | ti | map_l125_m1_e0 | het | 96.9048 | 96.3265 | 97.4900 | 77.0233 | 17595 | 671 | 17595 | 453 | 150 | 33.1126 | |
| eyeh-varpipe | SNP | tv | HG002compoundhet | homalt | 96.9051 | 99.4687 | 94.4704 | 53.4614 | 3370 | 18 | 1213 | 71 | 32 | 45.0704 | |
| hfeng-pmm2 | INDEL | * | * | hetalt | 96.9055 | 94.0484 | 99.9416 | 58.8044 | 23735 | 1502 | 23954 | 14 | 12 | 85.7143 | |
| qzeng-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.9066 | 98.3509 | 95.5042 | 77.2302 | 1491 | 25 | 1487 | 70 | 13 | 18.5714 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 52.3810 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 57.6271 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 54.5455 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | D6_15 | map_siren | hetalt | 96.9072 | 94.9495 | 98.9474 | 76.0101 | 94 | 5 | 94 | 1 | 0 | 0.0000 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 55.7522 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 52.3810 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.9072 | 100.0000 | 94.0000 | 65.5766 | 188 | 0 | 188 | 12 | 11 | 91.6667 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 50.9804 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | map_l150_m1_e0 | het | 96.9072 | 97.5104 | 96.3115 | 87.4421 | 470 | 12 | 470 | 18 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 54.1284 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_siren | hetalt | 96.9072 | 94.9495 | 98.9474 | 74.3243 | 94 | 5 | 94 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | * | hetalt | 96.9073 | 94.2584 | 99.7094 | 58.4640 | 23788 | 1449 | 24018 | 70 | 68 | 97.1429 | |
| gduggal-bwafb | INDEL | * | map_l125_m1_e0 | * | 96.9083 | 95.7760 | 98.0676 | 85.9889 | 2018 | 89 | 2030 | 40 | 8 | 20.0000 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.9087 | 96.8629 | 96.9546 | 55.9921 | 5990 | 194 | 6049 | 190 | 95 | 50.0000 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m0_e0 | het | 96.9091 | 94.1142 | 99.8751 | 60.5146 | 4797 | 300 | 4797 | 6 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9091 | 95.9594 | 97.8778 | 43.6515 | 13228 | 557 | 14482 | 314 | 297 | 94.5860 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9093 | 94.7026 | 99.2213 | 43.0691 | 6543 | 366 | 6626 | 52 | 48 | 92.3077 | |
| hfeng-pmm1 | INDEL | * | * | hetalt | 96.9096 | 94.0524 | 99.9458 | 58.8135 | 23736 | 1501 | 23960 | 13 | 12 | 92.3077 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m0_e0 | homalt | 96.9096 | 97.6471 | 96.1832 | 92.2623 | 83 | 2 | 126 | 5 | 5 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9107 | 94.4420 | 99.5119 | 50.8251 | 6525 | 384 | 6524 | 32 | 25 | 78.1250 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9108 | 94.6142 | 99.3217 | 39.0251 | 1827 | 104 | 2050 | 14 | 14 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9108 | 94.6142 | 99.3217 | 39.0251 | 1827 | 104 | 2050 | 14 | 14 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.9114 | 94.6773 | 99.2536 | 28.7725 | 4518 | 254 | 4521 | 34 | 34 | 100.0000 | |
| jpowers-varprowl | SNP | tv | map_l100_m2_e0 | het | 96.9118 | 97.1668 | 96.6583 | 76.0137 | 15330 | 447 | 15330 | 530 | 100 | 18.8679 | |