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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70651-70700 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | SNP | tv | HG002complexvar | homalt | 99.9758 | 99.9632 | 99.9884 | 22.8157 | 95076 | 35 | 95070 | 11 | 9 | 81.8182 | |
| rpoplin-dv42 | SNP | tv | HG002compoundhet | homalt | 99.7491 | 99.8229 | 99.6753 | 42.8668 | 3382 | 6 | 3377 | 11 | 9 | 81.8182 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m1_e0 | * | 86.3838 | 78.0331 | 96.7359 | 91.0029 | 849 | 239 | 978 | 33 | 27 | 81.8182 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m2_e0 | * | 86.6114 | 78.3027 | 96.8927 | 91.2636 | 895 | 248 | 1029 | 33 | 27 | 81.8182 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m2_e1 | * | 86.7845 | 78.5653 | 96.9245 | 91.3188 | 909 | 248 | 1040 | 33 | 27 | 81.8182 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m2_e0 | het | 80.5528 | 72.7273 | 90.2655 | 98.0877 | 88 | 33 | 102 | 11 | 9 | 81.8182 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m2_e1 | het | 80.6897 | 72.9508 | 90.2655 | 98.1239 | 89 | 33 | 102 | 11 | 9 | 81.8182 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7958 | 97.9116 | 99.6962 | 48.3747 | 3610 | 77 | 3610 | 11 | 9 | 81.8182 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.8974 | 99.0244 | 94.8598 | 89.7066 | 203 | 2 | 203 | 11 | 9 | 81.8182 | |
| 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 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.5246 | 91.6667 | 97.5664 | 80.0265 | 440 | 40 | 441 | 11 | 9 | 81.8182 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.2369 | 96.7202 | 99.8020 | 58.3539 | 5544 | 188 | 5545 | 11 | 9 | 81.8182 | |
| anovak-vg | SNP | * | map_l150_m1_e0 | homalt | 87.8735 | 78.8344 | 99.2540 | 70.4677 | 8887 | 2386 | 8781 | 66 | 54 | 81.8182 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.6908 | 99.5935 | 97.8044 | 62.3591 | 490 | 2 | 490 | 11 | 9 | 81.8182 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.0755 | 97.3713 | 98.7899 | 89.5852 | 889 | 24 | 898 | 11 | 9 | 81.8182 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 51.7766 | 41.1290 | 69.8630 | 99.9464 | 51 | 73 | 51 | 22 | 18 | 81.8182 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 55.0270 | 47.1042 | 66.1538 | 55.0691 | 122 | 137 | 129 | 66 | 54 | 81.8182 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | het | 98.2617 | 97.2756 | 99.2679 | 59.9547 | 3035 | 85 | 2983 | 22 | 18 | 81.8182 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2192 | 98.7929 | 99.6492 | 71.7503 | 3110 | 38 | 3125 | 11 | 9 | 81.8182 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.7166 | 95.4426 | 98.0251 | 79.9026 | 1089 | 52 | 1092 | 22 | 18 | 81.8182 | |
| bgallagher-sentieon | SNP | ti | map_l125_m1_e0 | homalt | 99.7370 | 99.5745 | 99.9001 | 63.0037 | 10998 | 47 | 10998 | 11 | 9 | 81.8182 | |
| bgallagher-sentieon | SNP | ti | map_l125_m2_e0 | homalt | 99.7354 | 99.5686 | 99.9028 | 65.6605 | 11309 | 49 | 11309 | 11 | 9 | 81.8182 | |
| bgallagher-sentieon | SNP | ti | map_l125_m2_e1 | homalt | 99.7377 | 99.5724 | 99.9037 | 65.6841 | 11409 | 49 | 11409 | 11 | 9 | 81.8182 | |
| bgallagher-sentieon | SNP | tv | map_siren | homalt | 99.8607 | 99.7854 | 99.9361 | 52.7521 | 17203 | 37 | 17200 | 11 | 9 | 81.8182 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5093 | 99.4855 | 99.5331 | 74.9202 | 2127 | 11 | 2345 | 11 | 9 | 81.8182 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.7939 | 98.7939 | 98.7939 | 70.6564 | 901 | 11 | 901 | 11 | 9 | 81.8182 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.0029 | 89.2396 | 97.0976 | 37.9705 | 622 | 75 | 736 | 22 | 18 | 81.8182 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.6908 | 99.5935 | 97.8044 | 62.6398 | 490 | 2 | 490 | 11 | 9 | 81.8182 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.3843 | 99.1803 | 95.6522 | 71.9357 | 484 | 4 | 484 | 22 | 18 | 81.8182 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.5295 | 93.9130 | 95.1542 | 63.9110 | 216 | 14 | 216 | 11 | 9 | 81.8182 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002complexvar | homalt | 93.4091 | 93.8511 | 92.9712 | 64.6727 | 290 | 19 | 291 | 22 | 18 | 81.8182 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6600 | 99.6762 | 99.6439 | 69.2790 | 3078 | 10 | 3078 | 11 | 9 | 81.8182 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3090 | 96.8597 | 99.8023 | 58.5209 | 5552 | 180 | 5553 | 11 | 9 | 81.8182 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.7064 | 91.7910 | 97.8131 | 63.8129 | 492 | 44 | 492 | 11 | 9 | 81.8182 | |
| dgrover-gatk | SNP | tv | map_siren | homalt | 99.7938 | 99.6520 | 99.9360 | 53.0780 | 17180 | 60 | 17177 | 11 | 9 | 81.8182 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 80.7503 | 68.3682 | 98.6094 | 40.8377 | 817 | 378 | 780 | 11 | 9 | 81.8182 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7844 | 99.6701 | 99.8990 | 60.1508 | 10875 | 36 | 10875 | 11 | 9 | 81.8182 | |
| eyeh-varpipe | INDEL | * | func_cds | het | 93.8679 | 92.9907 | 94.7619 | 36.5559 | 199 | 15 | 199 | 11 | 9 | 81.8182 | |
| eyeh-varpipe | INDEL | * | map_siren | hetalt | 51.9925 | 36.0324 | 93.3333 | 92.3928 | 89 | 158 | 154 | 11 | 9 | 81.8182 | |
| eyeh-varpipe | INDEL | C16_PLUS | * | homalt | 0.0000 | 0.0000 | 68.5714 | 93.3712 | 0 | 0 | 24 | 11 | 9 | 81.8182 | |
| eyeh-varpipe | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 0.0000 | 0.0000 | 50.0000 | 94.2257 | 0 | 0 | 11 | 11 | 9 | 81.8182 | |
| eyeh-varpipe | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 0.0000 | 0.0000 | 50.0000 | 94.2257 | 0 | 0 | 11 | 11 | 9 | 81.8182 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 80.0000 | 94.8454 | 0 | 0 | 44 | 11 | 9 | 81.8182 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 82.4180 | 70.7101 | 98.7723 | 34.9310 | 1673 | 693 | 1770 | 22 | 18 | 81.8182 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.4888 | 94.9264 | 98.1034 | 64.0867 | 580 | 31 | 569 | 11 | 9 | 81.8182 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5356 | 98.2273 | 98.8458 | 72.2319 | 942 | 17 | 942 | 11 | 9 | 81.8182 | |
| gduggal-snapvard | INDEL | * | map_l100_m1_e0 | homalt | 91.2452 | 85.0041 | 98.4754 | 75.7601 | 1043 | 184 | 1421 | 22 | 18 | 81.8182 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e0 | homalt | 91.2669 | 85.0119 | 98.5155 | 76.6062 | 1072 | 189 | 1460 | 22 | 18 | 81.8182 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e1 | homalt | 91.1844 | 84.8556 | 98.5333 | 76.7370 | 1087 | 194 | 1478 | 22 | 18 | 81.8182 | |
| gduggal-snapvard | SNP | ti | map_l150_m1_e0 | homalt | 97.5731 | 95.5507 | 99.6829 | 71.1266 | 7001 | 326 | 6916 | 22 | 18 | 81.8182 | |