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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12851-12900 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5960 | 99.4864 | 99.7059 | 77.5541 | 1356 | 7 | 1356 | 4 | 2 | 50.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5960 | 99.4864 | 99.7059 | 76.5153 | 1356 | 7 | 1356 | 4 | 1 | 25.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5960 | 99.4864 | 99.7059 | 77.2003 | 1356 | 7 | 1356 | 4 | 2 | 50.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5960 | 99.4864 | 99.7059 | 77.3522 | 1356 | 7 | 1356 | 4 | 2 | 50.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.7425 | 99.4863 | 100.0000 | 18.9415 | 581 | 3 | 582 | 0 | 0 | ||
| jli-custom | INDEL | D1_5 | map_siren | homalt | 99.5293 | 99.4863 | 99.5723 | 80.0137 | 1162 | 6 | 1164 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_siren | homalt | 99.5720 | 99.4863 | 99.6578 | 81.5178 | 1162 | 6 | 1165 | 4 | 4 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_siren | homalt | 99.4012 | 99.4863 | 99.3162 | 80.2231 | 1162 | 6 | 1162 | 8 | 7 | 87.5000 | |
| egarrison-hhga | SNP | ti | HG002compoundhet | homalt | 99.3116 | 99.4861 | 99.1378 | 31.0451 | 7356 | 38 | 7359 | 64 | 54 | 84.3750 | |
| jli-custom | SNP | * | map_l150_m1_e0 | homalt | 99.6978 | 99.4855 | 99.9109 | 67.4251 | 11215 | 58 | 11215 | 10 | 10 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.2761 | 99.4855 | 99.0676 | 75.6554 | 2127 | 11 | 2125 | 20 | 18 | 90.0000 | |
| hfeng-pmm3 | SNP | tv | map_l100_m2_e1 | het | 99.5354 | 99.4855 | 99.5854 | 67.1367 | 15856 | 82 | 15852 | 66 | 5 | 7.5758 | |
| bgallagher-sentieon | SNP | * | map_l150_m1_e0 | homalt | 99.6712 | 99.4855 | 99.8575 | 68.3134 | 11215 | 58 | 11215 | 16 | 12 | 75.0000 | |
| 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 | |
| ltrigg-rtg2 | SNP | ti | map_l250_m2_e0 | homalt | 99.6564 | 99.4854 | 99.8279 | 85.6390 | 1740 | 9 | 1740 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.8939 | 99.4854 | 96.3524 | 57.0732 | 14694 | 76 | 15268 | 578 | 432 | 74.7405 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7251 | 99.4854 | 99.9660 | 53.9892 | 14694 | 76 | 14695 | 5 | 1 | 20.0000 | |
| qzeng-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5290 | 99.4853 | 99.5728 | 52.8503 | 10050 | 52 | 10023 | 43 | 23 | 53.4884 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.7133 | 99.4851 | 99.9425 | 62.4676 | 1739 | 9 | 1739 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4099 | 99.4850 | 99.3350 | 55.8574 | 10045 | 52 | 9410 | 63 | 21 | 33.3333 | |
| raldana-dualsentieon | SNP | tv | map_l100_m2_e0 | * | 99.4052 | 99.4847 | 99.3259 | 66.9200 | 24904 | 129 | 24900 | 169 | 5 | 2.9586 | |
| ltrigg-rtg2 | SNP | ti | * | hetalt | 99.1449 | 99.4845 | 98.8075 | 41.3000 | 579 | 3 | 580 | 7 | 7 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | * | hetalt | 99.7416 | 99.4845 | 100.0000 | 40.0000 | 579 | 3 | 579 | 0 | 0 | ||
| cchapple-custom | SNP | ti | * | hetalt | 0.0000 | 99.4845 | 0.0000 | 0.0000 | 579 | 3 | 0 | 0 | 0 | ||
| ndellapenna-hhga | SNP | * | map_l150_m2_e1 | homalt | 99.6950 | 99.4842 | 99.9066 | 72.4121 | 11766 | 61 | 11766 | 11 | 10 | 90.9091 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.2240 | 99.4840 | 85.9515 | 72.5594 | 21786 | 113 | 22362 | 3655 | 3631 | 99.3434 | |
| hfeng-pmm3 | SNP | * | map_l125_m1_e0 | * | 99.5551 | 99.4838 | 99.6266 | 69.4654 | 45093 | 234 | 45087 | 169 | 26 | 15.3846 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e1 | * | 99.1800 | 99.4837 | 98.8781 | 73.5318 | 16571 | 86 | 16569 | 188 | 28 | 14.8936 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7411 | 99.4835 | 100.0000 | 59.6808 | 963 | 5 | 960 | 0 | 0 | ||
| dgrover-gatk | SNP | * | map_l100_m2_e1 | * | 99.4995 | 99.4835 | 99.5154 | 68.3658 | 74351 | 386 | 74340 | 362 | 79 | 21.8232 | |
| qzeng-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9643 | 99.4833 | 98.4507 | 67.9503 | 27535 | 143 | 27515 | 433 | 39 | 9.0069 | |
| bgallagher-sentieon | SNP | ti | map_l100_m2_e1 | het | 99.2699 | 99.4832 | 99.0575 | 69.3770 | 30800 | 160 | 30793 | 293 | 38 | 12.9693 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | homalt | 99.1629 | 99.4832 | 98.8447 | 86.8279 | 770 | 4 | 770 | 9 | 4 | 44.4444 | |
| astatham-gatk | INDEL | * | map_l125_m2_e1 | homalt | 99.2908 | 99.4832 | 99.0991 | 87.0284 | 770 | 4 | 770 | 7 | 4 | 57.1429 | |
| hfeng-pmm2 | INDEL | * | map_l125_m2_e1 | homalt | 99.2268 | 99.4832 | 98.9717 | 85.5417 | 770 | 4 | 770 | 8 | 4 | 50.0000 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e1 | homalt | 99.2908 | 99.4832 | 99.0991 | 84.6836 | 770 | 4 | 770 | 7 | 3 | 42.8571 | |
| raldana-dualsentieon | SNP | tv | map_siren | het | 99.3697 | 99.4827 | 99.2570 | 59.7589 | 28461 | 148 | 28456 | 213 | 2 | 0.9390 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.5925 | 99.4826 | 99.7026 | 70.3810 | 1346 | 7 | 1341 | 4 | 3 | 75.0000 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6346 | 99.4826 | 99.7870 | 59.5165 | 16344 | 85 | 17330 | 37 | 22 | 59.4595 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6906 | 99.4825 | 97.9112 | 60.8903 | 18072 | 94 | 18047 | 385 | 366 | 95.0649 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6906 | 99.4825 | 97.9112 | 60.8903 | 18072 | 94 | 18047 | 385 | 366 | 95.0649 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6114 | 99.4825 | 99.7406 | 77.9336 | 769 | 4 | 769 | 2 | 0 | 0.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6114 | 99.4825 | 99.7406 | 76.8607 | 769 | 4 | 769 | 2 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6112 | 99.4825 | 99.7403 | 78.0188 | 769 | 4 | 768 | 2 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7406 | 99.4825 | 100.0000 | 76.8652 | 769 | 4 | 769 | 0 | 0 | ||
| ckim-dragen | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5191 | 99.4821 | 99.5562 | 75.3624 | 48021 | 250 | 47785 | 213 | 116 | 54.4601 | |
| cchapple-custom | SNP | ti | HG002compoundhet | hetalt | 0.0000 | 99.4819 | 0.0000 | 0.0000 | 576 | 3 | 0 | 0 | 0 | ||
| hfeng-pmm1 | SNP | tv | map_l250_m0_e0 | homalt | 98.4615 | 99.4819 | 97.4619 | 93.5494 | 192 | 1 | 192 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | SNP | tv | map_l250_m0_e0 | homalt | 98.4615 | 99.4819 | 97.4619 | 93.6122 | 192 | 1 | 192 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | SNP | ti | HG002compoundhet | hetalt | 99.7403 | 99.4819 | 100.0000 | 21.8453 | 576 | 3 | 576 | 0 | 0 | ||