PrecisionFDA
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71751-71800 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8937 | 99.8584 | 99.9291 | 56.1359 | 11280 | 16 | 11280 | 8 | 7 | 87.5000 | |
| jlack-gatk | SNP | * | HG002complexvar | * | 99.9118 | 99.8944 | 99.9292 | 19.3948 | 753584 | 797 | 753425 | 534 | 201 | 37.6404 | |
| astatham-gatk | SNP | ti | func_cds | het | 99.8234 | 99.7178 | 99.9293 | 24.2094 | 8480 | 24 | 8478 | 6 | 0 | 0.0000 | |
| jli-custom | SNP | ti | map_l125_m2_e0 | homalt | 99.7530 | 99.5774 | 99.9293 | 65.1271 | 11310 | 48 | 11310 | 8 | 8 | 100.0000 | |
| ckim-isaac | SNP | tv | map_l125_m2_e1 | homalt | 63.5067 | 46.5426 | 99.9293 | 67.7423 | 2827 | 3247 | 2827 | 2 | 2 | 100.0000 | |
| dgrover-gatk | SNP | ti | map_l100_m2_e1 | homalt | 99.7264 | 99.5242 | 99.9294 | 59.8793 | 18406 | 88 | 18406 | 13 | 11 | 84.6154 | |
| egarrison-hhga | SNP | ti | map_l125_m2_e0 | homalt | 99.8237 | 99.7183 | 99.9294 | 68.6664 | 11326 | 32 | 11326 | 8 | 8 | 100.0000 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e1 | homalt | 99.8051 | 99.6810 | 99.9295 | 59.8306 | 18435 | 59 | 18434 | 13 | 13 | 100.0000 | |
| raldana-dualsentieon | SNP | * | map_l100_m1_e0 | homalt | 99.8258 | 99.7223 | 99.9295 | 56.9722 | 26928 | 75 | 26928 | 19 | 15 | 78.9474 | |
| raldana-dualsentieon | SNP | ti | map_l100_m2_e1 | homalt | 99.8214 | 99.7134 | 99.9296 | 58.8080 | 18441 | 53 | 18441 | 13 | 12 | 92.3077 | |
| egarrison-hhga | SNP | ti | map_l100_m2_e1 | homalt | 99.8593 | 99.7891 | 99.9296 | 62.7744 | 18455 | 39 | 18455 | 13 | 13 | 100.0000 | |
| asubramanian-gatk | SNP | ti | * | het | 99.0688 | 98.2225 | 99.9298 | 21.0842 | 1259105 | 22786 | 1259055 | 884 | 67 | 7.5792 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8598 | 99.7898 | 99.9299 | 28.4855 | 1424 | 3 | 1425 | 1 | 0 | 0.0000 | |
| ckim-dragen | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8598 | 99.7898 | 99.9299 | 26.0373 | 1424 | 3 | 1425 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9299 | 99.9299 | 99.9299 | 28.6857 | 1426 | 1 | 1426 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8949 | 99.8598 | 99.9299 | 27.9657 | 1425 | 2 | 1426 | 1 | 0 | 0.0000 | |
| jli-custom | SNP | ti | map_l125_m2_e1 | homalt | 99.7552 | 99.5811 | 99.9299 | 65.1529 | 11410 | 48 | 11410 | 8 | 8 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7960 | 99.6623 | 99.9299 | 57.3191 | 17119 | 58 | 17115 | 12 | 5 | 41.6667 | |
| jli-custom | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 27.1057 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9300 | 99.9299 | 99.9300 | 23.7460 | 1426 | 1 | 1428 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9300 | 99.9299 | 99.9300 | 24.2713 | 1426 | 1 | 1428 | 1 | 1 | 100.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 27.1057 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
| egarrison-hhga | SNP | ti | map_l125_m2_e1 | homalt | 99.8253 | 99.7207 | 99.9300 | 68.7014 | 11426 | 32 | 11426 | 8 | 8 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5469 | 99.1667 | 99.9300 | 67.8732 | 1428 | 12 | 1428 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 30.2053 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 26.8443 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 26.9939 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 26.8817 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | map_siren | homalt | 99.8287 | 99.7274 | 99.9303 | 55.1755 | 17193 | 47 | 17193 | 12 | 10 | 83.3333 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7216 | 99.5139 | 99.9303 | 67.9123 | 1433 | 7 | 1433 | 1 | 0 | 0.0000 | |
| ckim-vqsr | SNP | * | * | * | 99.2866 | 98.6511 | 99.9303 | 23.6837 | 3013415 | 41204 | 3013272 | 2101 | 144 | 6.8539 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5046 | 99.0824 | 99.9304 | 64.6956 | 11446 | 106 | 11491 | 8 | 6 | 75.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5046 | 99.0824 | 99.9304 | 64.6956 | 11446 | 106 | 11491 | 8 | 6 | 75.0000 | |
| ltrigg-rtg2 | SNP | * | HG002complexvar | het | 99.8358 | 99.7414 | 99.9305 | 18.3888 | 464296 | 1204 | 464515 | 323 | 94 | 29.1022 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8935 | 99.8564 | 99.9306 | 55.5702 | 20170 | 29 | 20170 | 14 | 13 | 92.8571 | |
| ckim-gatk | SNP | ti | map_l125_m2_e0 | homalt | 77.6462 | 63.4883 | 99.9307 | 75.7176 | 7211 | 4147 | 7211 | 5 | 4 | 80.0000 | |
| raldana-dualsentieon | SNP | * | map_l100_m2_e0 | homalt | 99.8291 | 99.7275 | 99.9308 | 59.5568 | 27448 | 75 | 27448 | 19 | 15 | 78.9474 | |
| ltrigg-rtg2 | SNP | * | map_l100_m0_e0 | homalt | 99.7457 | 99.5611 | 99.9309 | 58.9350 | 11569 | 51 | 11567 | 8 | 6 | 75.0000 | |
| egarrison-hhga | SNP | * | map_l100_m2_e0 | homalt | 99.8491 | 99.7675 | 99.9309 | 63.4300 | 27459 | 64 | 27459 | 19 | 18 | 94.7368 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8131 | 99.6954 | 99.9311 | 54.3062 | 10147 | 31 | 10148 | 7 | 7 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9509 | 99.9705 | 99.9313 | 54.2320 | 10175 | 3 | 10175 | 7 | 7 | 100.0000 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e0 | homalt | 99.7345 | 99.5384 | 99.9314 | 70.4233 | 11645 | 54 | 11647 | 8 | 7 | 87.5000 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.6580 | 99.3861 | 99.9314 | 49.5848 | 1457 | 9 | 1456 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4357 | 98.9449 | 99.9314 | 53.1567 | 27664 | 295 | 27664 | 19 | 7 | 36.8421 | |
| raldana-dualsentieon | SNP | * | map_l100_m2_e1 | homalt | 99.8307 | 99.7302 | 99.9315 | 59.5367 | 27721 | 75 | 27721 | 19 | 15 | 78.9474 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m1_e0 | homalt | 99.7778 | 99.6246 | 99.9315 | 63.2977 | 5838 | 22 | 5839 | 4 | 3 | 75.0000 | |
| egarrison-hhga | SNP | * | map_l100_m2_e1 | homalt | 99.8506 | 99.7698 | 99.9315 | 63.4220 | 27732 | 64 | 27732 | 19 | 18 | 94.7368 | |
| ckim-gatk | SNP | ti | map_l125_m2_e1 | homalt | 77.8127 | 63.7109 | 99.9316 | 75.6597 | 7300 | 4158 | 7300 | 5 | 4 | 80.0000 | |
| ckim-gatk | SNP | ti | map_l150_m2_e0 | homalt | 73.0167 | 57.5236 | 99.9316 | 81.2297 | 4381 | 3235 | 4381 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | SNP | tv | map_l125_m1_e0 | homalt | 99.8377 | 99.7440 | 99.9316 | 65.7995 | 5845 | 15 | 5846 | 4 | 4 | 100.0000 | |