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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12651-12700 / 86044 show all | |||||||||||||||
| ghariani-varprowl | SNP | ti | map_l150_m2_e0 | homalt | 99.0272 | 98.2405 | 99.8266 | 73.7644 | 7482 | 134 | 7482 | 13 | 10 | 76.9231 | |
| astatham-gatk | INDEL | * | map_l150_m1_e0 | homalt | 99.0270 | 99.1342 | 98.9201 | 88.5254 | 458 | 4 | 458 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m1_e0 | homalt | 99.0270 | 99.1342 | 98.9201 | 87.1816 | 458 | 4 | 458 | 5 | 3 | 60.0000 | |
| ltrigg-rtg2 | INDEL | * | HG002complexvar | het | 99.0269 | 98.6108 | 99.4465 | 53.1360 | 45570 | 642 | 44739 | 249 | 116 | 46.5863 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.0268 | 98.8184 | 99.2361 | 41.7338 | 2258 | 27 | 2728 | 21 | 10 | 47.6190 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.0261 | 98.4496 | 99.6094 | 60.3101 | 254 | 4 | 255 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e1 | het | 99.0261 | 99.2514 | 98.8018 | 75.8168 | 10474 | 79 | 10472 | 127 | 11 | 8.6614 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.0261 | 98.9819 | 99.0704 | 52.1206 | 11181 | 115 | 22167 | 208 | 201 | 96.6346 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0261 | 98.9285 | 99.1239 | 73.3821 | 93437 | 1012 | 93346 | 825 | 733 | 88.8485 | |
| gduggal-bwafb | SNP | * | map_l100_m1_e0 | * | 99.0258 | 99.1202 | 98.9317 | 67.1588 | 71766 | 637 | 71768 | 775 | 161 | 20.7742 | |
| hfeng-pmm2 | SNP | ti | map_l150_m2_e1 | het | 99.0257 | 99.2009 | 98.8512 | 79.6610 | 12911 | 104 | 12907 | 150 | 13 | 8.6667 | |
| hfeng-pmm2 | INDEL | D16_PLUS | * | homalt | 99.0257 | 99.1135 | 98.9381 | 67.4789 | 1677 | 15 | 1677 | 18 | 12 | 66.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.0254 | 98.4733 | 99.5838 | 72.6059 | 1677 | 26 | 1675 | 7 | 2 | 28.5714 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e1 | homalt | 99.0253 | 99.1413 | 98.9097 | 85.0193 | 1270 | 11 | 1270 | 14 | 6 | 42.8571 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.0251 | 98.7500 | 99.3017 | 67.9499 | 1422 | 18 | 1422 | 10 | 10 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l150_m2_e1 | homalt | 99.0244 | 99.5098 | 98.5437 | 88.9840 | 203 | 1 | 203 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I1_5 | map_l150_m2_e1 | homalt | 99.0244 | 99.5098 | 98.5437 | 88.9009 | 203 | 1 | 203 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m2_e1 | homalt | 99.0244 | 99.5098 | 98.5437 | 88.6501 | 203 | 1 | 203 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | SNP | ti | map_l100_m2_e1 | het | 99.0241 | 98.3236 | 99.7346 | 57.0635 | 30441 | 519 | 30443 | 81 | 7 | 8.6420 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.0240 | 99.1401 | 98.9082 | 42.6607 | 5073 | 44 | 5073 | 56 | 56 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.0239 | 99.3681 | 98.6821 | 49.3000 | 3145 | 20 | 3145 | 42 | 42 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.0235 | 98.4914 | 99.5614 | 72.6291 | 457 | 7 | 454 | 2 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.0234 | 99.7434 | 98.3137 | 61.3807 | 1166 | 3 | 1166 | 20 | 19 | 95.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0234 | 99.8552 | 98.2053 | 45.9033 | 10342 | 15 | 10342 | 189 | 184 | 97.3545 | |
| hfeng-pmm2 | SNP | ti | map_l150_m2_e0 | het | 99.0233 | 99.1926 | 98.8546 | 79.5912 | 12777 | 104 | 12773 | 148 | 13 | 8.7838 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.0233 | 98.3380 | 99.7183 | 57.9882 | 355 | 6 | 354 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.0231 | 98.3067 | 99.7501 | 65.5325 | 3193 | 55 | 3193 | 8 | 6 | 75.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0231 | 98.3802 | 99.6744 | 47.3579 | 3705 | 61 | 3674 | 12 | 9 | 75.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0231 | 98.3802 | 99.6744 | 47.3579 | 3705 | 61 | 3674 | 12 | 9 | 75.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0230 | 99.5751 | 98.4769 | 55.3942 | 3750 | 16 | 3750 | 58 | 54 | 93.1034 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0230 | 99.5751 | 98.4769 | 55.3942 | 3750 | 16 | 3750 | 58 | 54 | 93.1034 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.2093 | 152 | 3 | 153 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.9596 | 152 | 3 | 152 | 0 | 0 | ||
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 83.4056 | 152 | 3 | 153 | 0 | 0 | ||
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.9241 | 152 | 3 | 153 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.9213 | 152 | 3 | 152 | 0 | 0 | ||
| qzeng-custom | SNP | tv | HG002complexvar | het | 99.0228 | 98.2997 | 99.7567 | 23.1864 | 148171 | 2563 | 146790 | 358 | 101 | 28.2123 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 99.0228 | 100.0000 | 98.0645 | 81.3926 | 6 | 0 | 152 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.8442 | 152 | 3 | 152 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | map_l100_m1_e0 | homalt | 99.0228 | 99.1035 | 98.9422 | 84.0369 | 1216 | 11 | 1216 | 13 | 6 | 46.1538 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.5740 | 152 | 3 | 153 | 0 | 0 | ||
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.4138 | 152 | 3 | 153 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | map_l250_m2_e1 | * | 99.0226 | 98.9358 | 99.1095 | 88.7342 | 7902 | 85 | 7902 | 71 | 9 | 12.6761 | |
| raldana-dualsentieon | SNP | tv | map_l150_m2_e1 | * | 99.0225 | 99.0871 | 98.9579 | 75.9025 | 11397 | 105 | 11395 | 120 | 3 | 2.5000 | |
| ckim-dragen | SNP | ti | map_siren | * | 99.0224 | 99.5177 | 98.5321 | 56.8522 | 99871 | 484 | 99880 | 1488 | 162 | 10.8871 | |
| gduggal-bwavard | SNP | tv | func_cds | * | 99.0223 | 98.5358 | 99.5136 | 36.8583 | 4307 | 64 | 4296 | 21 | 9 | 42.8571 | |
| hfeng-pmm3 | SNP | tv | map_l125_m0_e0 | het | 99.0220 | 98.9321 | 99.1120 | 76.4302 | 4354 | 47 | 4353 | 39 | 3 | 7.6923 | |
| egarrison-hhga | SNP | tv | map_l150_m1_e0 | het | 99.0220 | 98.3876 | 99.6646 | 73.3388 | 6834 | 112 | 6834 | 23 | 9 | 39.1304 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.0215 | 98.2585 | 99.7963 | 32.1198 | 1467 | 26 | 1470 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | segdup | * | 99.0215 | 98.9437 | 99.0995 | 94.0294 | 2529 | 27 | 2531 | 23 | 4 | 17.3913 | |