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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76651-76700 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | D1_5 | HG002compoundhet | homalt | 46.3350 | 95.8763 | 30.5495 | 82.2716 | 279 | 12 | 278 | 632 | 615 | 97.3101 | |
| mlin-fermikit | INDEL | D1_5 | HG002compoundhet | * | 74.1830 | 69.7262 | 79.2484 | 64.3487 | 8531 | 3704 | 8520 | 2231 | 2171 | 97.3106 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8931 | 97.7585 | 98.0280 | 45.2710 | 9246 | 212 | 9246 | 186 | 181 | 97.3118 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9856 | 97.6629 | 98.3105 | 52.2428 | 10823 | 259 | 10823 | 186 | 181 | 97.3118 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 62.8380 | 55.5936 | 72.2533 | 62.8887 | 487 | 389 | 388 | 149 | 145 | 97.3154 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 69.5318 | 96.2754 | 54.4161 | 53.0143 | 15173 | 587 | 15255 | 12779 | 12436 | 97.3159 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002complexvar | * | 68.3069 | 62.1849 | 75.7660 | 65.1794 | 814 | 495 | 816 | 261 | 254 | 97.3180 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.8832 | 99.4000 | 96.4120 | 64.9755 | 18057 | 109 | 18057 | 672 | 654 | 97.3214 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.8832 | 99.4000 | 96.4120 | 64.9755 | 18057 | 109 | 18057 | 672 | 654 | 97.3214 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.3197 | 98.8079 | 95.8756 | 69.0152 | 4393 | 53 | 4347 | 187 | 182 | 97.3262 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.5231 | 98.6023 | 94.5298 | 62.0425 | 12346 | 175 | 12304 | 712 | 693 | 97.3315 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 67.3074 | 57.8428 | 80.4752 | 45.6223 | 4864 | 3545 | 13445 | 3262 | 3175 | 97.3329 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9385 | 99.9175 | 97.9784 | 62.3961 | 3635 | 3 | 3635 | 75 | 73 | 97.3333 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.2063 | 96.6159 | 93.8373 | 59.1611 | 1142 | 40 | 1142 | 75 | 73 | 97.3333 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9385 | 99.9175 | 97.9784 | 62.3961 | 3635 | 3 | 3635 | 75 | 73 | 97.3333 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1008 | 91.8360 | 94.4009 | 50.5628 | 2531 | 225 | 2529 | 150 | 146 | 97.3333 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.3584 | 92.3931 | 96.4091 | 46.0732 | 10239 | 843 | 11115 | 414 | 403 | 97.3430 | |
| jmaeng-gatk | INDEL | D1_5 | HG002compoundhet | het | 95.7531 | 97.8588 | 93.7361 | 78.9768 | 1691 | 37 | 1691 | 113 | 110 | 97.3451 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.9082 | 98.0492 | 93.8587 | 69.1405 | 3468 | 69 | 3454 | 226 | 220 | 97.3451 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002compoundhet | het | 82.2726 | 79.2056 | 85.5867 | 66.5243 | 678 | 178 | 671 | 113 | 110 | 97.3451 | |
| egarrison-hhga | INDEL | D1_5 | HG002compoundhet | * | 69.0217 | 68.1406 | 69.9260 | 60.9500 | 8337 | 3898 | 8410 | 3617 | 3521 | 97.3459 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 93.3394 | 94.5919 | 92.1197 | 68.0226 | 5772 | 330 | 5728 | 490 | 477 | 97.3469 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002compoundhet | het | 61.6175 | 85.1636 | 48.2714 | 46.2388 | 729 | 127 | 1480 | 1586 | 1544 | 97.3518 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0282 | 99.8648 | 98.2055 | 45.9010 | 10343 | 14 | 10343 | 189 | 184 | 97.3545 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0234 | 99.8552 | 98.2053 | 45.9033 | 10342 | 15 | 10342 | 189 | 184 | 97.3545 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 83.6639 | 97.9752 | 73.0007 | 49.9045 | 8226 | 170 | 8617 | 3187 | 3103 | 97.3643 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 64.0613 | 59.9713 | 68.7500 | 40.2750 | 418 | 279 | 418 | 190 | 185 | 97.3684 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 79.1209 | 100.0000 | 65.4545 | 84.4193 | 169 | 0 | 72 | 38 | 37 | 97.3684 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6358 | 95.7046 | 99.6464 | 30.5076 | 10628 | 477 | 10709 | 38 | 37 | 97.3684 | |
| dgrover-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 94.7256 | 93.1885 | 96.3143 | 48.2949 | 944 | 69 | 993 | 38 | 37 | 97.3684 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0139 | 98.4069 | 99.6285 | 44.6543 | 10192 | 165 | 10191 | 38 | 37 | 97.3684 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6271 | 99.4292 | 99.8258 | 72.6049 | 21774 | 125 | 21771 | 38 | 37 | 97.3684 | |
| rpoplin-dv42 | SNP | * | map_l125_m1_e0 | homalt | 99.4988 | 99.2251 | 99.7740 | 66.6415 | 16774 | 131 | 16774 | 38 | 37 | 97.3684 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.6075 | 95.2464 | 98.0080 | 54.6884 | 16831 | 840 | 16827 | 342 | 333 | 97.3684 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.6075 | 95.2464 | 98.0080 | 54.6884 | 16831 | 840 | 16827 | 342 | 333 | 97.3684 | |
| jmaeng-gatk | INDEL | I1_5 | HG002compoundhet | het | 94.2604 | 97.6471 | 91.1007 | 86.7453 | 830 | 20 | 778 | 76 | 74 | 97.3684 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4256 | 99.8900 | 98.9654 | 59.3515 | 3634 | 4 | 3635 | 38 | 37 | 97.3684 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9293 | 97.2651 | 98.6025 | 47.2860 | 13408 | 377 | 13406 | 190 | 185 | 97.3684 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 74.0111 | 93.5484 | 61.2245 | 84.4444 | 58 | 4 | 60 | 38 | 37 | 97.3684 | |
| gduggal-bwafb | INDEL | I1_5 | HG002complexvar | hetalt | 89.3217 | 83.8355 | 95.5763 | 80.3162 | 1447 | 279 | 821 | 38 | 37 | 97.3684 | |
| ckim-dragen | INDEL | D6_15 | HG002complexvar | homalt | 98.2293 | 99.6578 | 96.8412 | 63.9172 | 1165 | 4 | 1165 | 38 | 37 | 97.3684 | |
| hfeng-pmm2 | INDEL | D1_5 | * | homalt | 99.8457 | 99.8467 | 99.8447 | 59.0004 | 48851 | 75 | 48855 | 76 | 74 | 97.3684 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 80.8159 | 84.8980 | 77.1084 | 78.5252 | 416 | 74 | 256 | 76 | 74 | 97.3684 | |
| hfeng-pmm2 | INDEL | I6_15 | HG002complexvar | * | 98.1553 | 97.1411 | 99.1910 | 57.4123 | 4655 | 137 | 4659 | 38 | 37 | 97.3684 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.0603 | 94.6723 | 99.5719 | 32.5070 | 8796 | 495 | 8838 | 38 | 37 | 97.3684 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.0603 | 94.6723 | 99.5719 | 32.5070 | 8796 | 495 | 8838 | 38 | 37 | 97.3684 | |
| astatham-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 94.7783 | 93.2873 | 96.3178 | 48.2447 | 945 | 68 | 994 | 38 | 37 | 97.3684 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.5254 | 93.7213 | 99.5026 | 29.5295 | 7553 | 506 | 7601 | 38 | 37 | 97.3684 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.5254 | 93.7213 | 99.5026 | 29.5295 | 7553 | 506 | 7601 | 38 | 37 | 97.3684 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.6262 | 97.1009 | 76.5768 | 51.4227 | 12158 | 363 | 12930 | 3955 | 3851 | 97.3704 | |