PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19601-19650 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | * | HG002complexvar | homalt | 97.6327 | 97.4544 | 97.8116 | 53.5251 | 26339 | 688 | 26326 | 589 | 564 | 95.7555 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6327 | 96.9169 | 98.3591 | 48.8223 | 19961 | 635 | 19961 | 333 | 328 | 98.4985 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6321 | 97.8377 | 97.4273 | 73.5072 | 3484 | 77 | 3484 | 92 | 64 | 69.5652 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m2_e0 | * | 97.6319 | 98.0157 | 97.2510 | 85.8443 | 1877 | 38 | 1875 | 53 | 6 | 11.3208 | |
| ndellapenna-hhga | SNP | ti | map_l250_m1_e0 | het | 97.6313 | 95.8221 | 99.5101 | 88.0937 | 2844 | 124 | 2844 | 14 | 6 | 42.8571 | |
| ckim-dragen | SNP | * | map_l100_m0_e0 | het | 97.6312 | 98.8022 | 96.4876 | 75.1408 | 20951 | 254 | 20960 | 763 | 67 | 8.7811 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002compoundhet | hetalt | 97.6303 | 95.8410 | 99.4878 | 26.1770 | 7812 | 339 | 7769 | 40 | 40 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.6303 | 99.8788 | 95.4809 | 71.6678 | 824 | 1 | 824 | 39 | 38 | 97.4359 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.6303 | 99.8788 | 95.4809 | 71.6678 | 824 | 1 | 824 | 39 | 38 | 97.4359 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m1_e0 | * | 97.6299 | 97.0238 | 98.2437 | 83.5797 | 1793 | 55 | 1790 | 32 | 6 | 18.7500 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l125_m2_e1 | het | 97.6297 | 96.2338 | 99.0667 | 83.9125 | 741 | 29 | 743 | 7 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6291 | 95.3819 | 99.9848 | 25.9951 | 6568 | 318 | 6581 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.6284 | 97.4026 | 97.8552 | 79.4942 | 375 | 10 | 365 | 8 | 7 | 87.5000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6279 | 96.5566 | 98.7231 | 49.8328 | 35332 | 1260 | 35256 | 456 | 427 | 93.6404 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.6276 | 96.6102 | 98.6667 | 60.1064 | 57 | 2 | 74 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6271 | 96.4286 | 98.8558 | 65.7524 | 1728 | 64 | 1728 | 20 | 18 | 90.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.6271 | 95.3642 | 100.0000 | 60.5195 | 144 | 7 | 152 | 0 | 0 | ||
| ckim-dragen | INDEL | D6_15 | map_siren | * | 97.6267 | 97.0530 | 98.2072 | 86.4726 | 494 | 15 | 493 | 9 | 2 | 22.2222 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.6262 | 97.1247 | 98.1330 | 61.8291 | 42089 | 1246 | 41891 | 797 | 748 | 93.8519 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.6256 | 97.1429 | 98.1132 | 79.1104 | 374 | 11 | 364 | 7 | 6 | 85.7143 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.6256 | 97.1429 | 98.1132 | 78.4302 | 374 | 11 | 364 | 7 | 6 | 85.7143 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m0_e0 | homalt | 97.6237 | 95.7364 | 99.5868 | 77.6133 | 247 | 11 | 241 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6237 | 97.0597 | 98.1943 | 69.6107 | 3433 | 104 | 3426 | 63 | 42 | 66.6667 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.6232 | 99.8976 | 95.4501 | 41.3150 | 1951 | 2 | 1951 | 93 | 92 | 98.9247 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6230 | 96.5771 | 98.6919 | 84.5324 | 2624 | 93 | 2716 | 36 | 23 | 63.8889 | |
| egarrison-hhga | INDEL | D1_5 | * | het | 97.6225 | 99.3251 | 95.9773 | 54.9367 | 86983 | 591 | 87418 | 3664 | 3399 | 92.7675 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6205 | 96.5909 | 98.6722 | 61.1039 | 1190 | 42 | 1189 | 16 | 15 | 93.7500 | |
| bgallagher-sentieon | INDEL | D16_PLUS | * | * | 97.6204 | 97.7889 | 97.4525 | 70.3579 | 6634 | 150 | 6618 | 173 | 117 | 67.6301 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6198 | 95.9122 | 99.3894 | 60.1406 | 1267 | 54 | 1465 | 9 | 5 | 55.5556 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6197 | 95.7908 | 99.5198 | 33.5726 | 751 | 33 | 829 | 4 | 4 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6195 | 96.5975 | 98.6634 | 57.7294 | 15501 | 546 | 15502 | 210 | 201 | 95.7143 | |
| raldana-dualsentieon | INDEL | I6_15 | func_cds | * | 97.6190 | 95.3488 | 100.0000 | 38.8060 | 41 | 2 | 41 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m0_e0 | homalt | 97.6190 | 96.4706 | 98.7952 | 89.0933 | 82 | 3 | 82 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6190 | 97.6190 | 97.6190 | 89.3401 | 41 | 1 | 41 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | func_cds | * | 97.6190 | 95.3488 | 100.0000 | 48.7500 | 41 | 2 | 41 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.6190 | 95.3488 | 100.0000 | 77.2222 | 41 | 2 | 41 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D1_5 | map_l150_m0_e0 | homalt | 97.6190 | 96.4706 | 98.7952 | 90.1425 | 82 | 3 | 82 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m0_e0 | homalt | 97.6190 | 96.4706 | 98.7952 | 90.8691 | 82 | 3 | 82 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D6_15 | map_l150_m2_e1 | * | 97.6190 | 96.4706 | 98.7952 | 93.1120 | 82 | 3 | 82 | 1 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6190 | 97.6190 | 97.6190 | 89.5262 | 41 | 1 | 41 | 1 | 0 | 0.0000 | |
| jli-custom | INDEL | D6_15 | map_l125_m2_e1 | * | 97.6190 | 96.0938 | 99.1935 | 89.4288 | 123 | 5 | 123 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e1 | hetalt | 97.6190 | 95.3488 | 100.0000 | 72.2973 | 41 | 2 | 41 | 0 | 0 | ||
| bgallagher-sentieon | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6190 | 97.6190 | 97.6190 | 89.3939 | 41 | 1 | 41 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | tv | map_l100_m2_e1 | hetalt | 97.6190 | 95.3488 | 100.0000 | 72.2973 | 41 | 2 | 41 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6190 | 97.6190 | 97.6190 | 89.3939 | 41 | 1 | 41 | 1 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6190 | 97.6190 | 97.6190 | 89.3671 | 41 | 1 | 41 | 1 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m2_e0 | homalt | 97.6190 | 96.1877 | 99.0937 | 79.2996 | 328 | 13 | 328 | 3 | 3 | 100.0000 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6190 | 97.6190 | 97.6190 | 89.5522 | 41 | 1 | 41 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6185 | 96.2845 | 98.9899 | 65.5452 | 907 | 35 | 882 | 9 | 2 | 22.2222 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6184 | 95.3476 | 100.0000 | 25.5017 | 5185 | 253 | 5197 | 0 | 0 | ||