PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
30051-30100 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 47.6351 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | C1_5 | HG002compoundhet | * | 100.0000 | 100.0000 | 100.0000 | 93.2181 | 1 | 0 | 153 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 95.6250 | 96.0851 | 0 | 0 | 153 | 7 | 1 | 14.2857 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.2264 | 100.0000 | 92.7273 | 75.4829 | 153 | 0 | 153 | 12 | 12 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 82.4798 | 81.3830 | 83.6066 | 48.1586 | 153 | 35 | 153 | 30 | 29 | 96.6667 | |
| eyeh-varpipe | SNP | * | tech_badpromoters | * | 83.8356 | 100.0000 | 72.1698 | 67.3846 | 157 | 0 | 153 | 59 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 77.5015 | 63.7949 | 98.7097 | 42.3792 | 622 | 353 | 153 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | INDEL | * | map_l250_m2_e0 | het | 74.7095 | 69.0476 | 81.3830 | 98.2825 | 145 | 65 | 153 | 35 | 5 | 14.2857 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 55.9506 | 88.4848 | 40.9091 | 87.7738 | 146 | 19 | 153 | 221 | 13 | 5.8824 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.2264 | 100.0000 | 92.7273 | 77.4590 | 153 | 0 | 153 | 12 | 11 | 91.6667 | |
| bgallagher-sentieon | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 49.3464 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.2264 | 100.0000 | 92.7273 | 77.1468 | 153 | 0 | 153 | 12 | 11 | 91.6667 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.4138 | 152 | 3 | 153 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.8354 | 100.0000 | 93.8650 | 76.7806 | 153 | 0 | 153 | 10 | 9 | 90.0000 | |
| raldana-dualsentieon | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 46.1806 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 90.0000 | 85.9551 | 94.4444 | 70.7581 | 153 | 25 | 153 | 9 | 8 | 88.8889 | |
| ciseli-custom | INDEL | D1_5 | func_cds | * | 91.8919 | 96.2264 | 87.9310 | 36.2637 | 153 | 6 | 153 | 21 | 4 | 19.0476 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.5300 | 100.0000 | 93.2927 | 78.6736 | 153 | 0 | 153 | 11 | 11 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0228 | 98.0645 | 100.0000 | 82.9241 | 152 | 3 | 153 | 0 | 0 | ||
| ckim-dragen | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 43.8406 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.9248 | 100.0000 | 92.1687 | 77.1034 | 153 | 0 | 153 | 13 | 12 | 92.3077 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.6928 | 97.4194 | 100.0000 | 82.8829 | 151 | 4 | 152 | 0 | 0 | ||
| ciseli-custom | INDEL | I1_5 | map_l125_m0_e0 | * | 56.0912 | 49.6774 | 64.4068 | 91.5984 | 154 | 156 | 152 | 84 | 66 | 78.5714 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 98.0107 | 96.7105 | 99.3464 | 91.3803 | 147 | 5 | 152 | 1 | 1 | 100.0000 | |
| 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 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 86.3636 | 76.0000 | 100.0000 | 50.1639 | 152 | 48 | 152 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D6_15 | map_l100_m2_e0 | het | 92.3597 | 87.7863 | 97.4359 | 83.4921 | 115 | 16 | 152 | 4 | 1 | 25.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 57.2505 | 41.9890 | 89.9408 | 89.1458 | 152 | 210 | 152 | 17 | 17 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 28.6792 | 24.6753 | 34.2342 | 68.3084 | 152 | 464 | 152 | 292 | 286 | 97.9452 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 82.5264 | 78.6070 | 86.8571 | 81.0401 | 158 | 43 | 152 | 23 | 4 | 17.3913 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 75.9096 | 68.0162 | 85.8757 | 72.5581 | 168 | 79 | 152 | 25 | 16 | 64.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.6928 | 97.4194 | 100.0000 | 82.8829 | 151 | 4 | 152 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | segdup | * | 91.8429 | 86.8571 | 97.4359 | 90.7253 | 152 | 23 | 152 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 76.5743 | 94.4099 | 64.4068 | 35.1648 | 152 | 9 | 152 | 84 | 84 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.9596 | 152 | 3 | 152 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.6928 | 97.4194 | 100.0000 | 81.9477 | 151 | 4 | 152 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.8442 | 152 | 3 | 152 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.8690 | 94.5122 | 99.3464 | 73.7564 | 155 | 9 | 152 | 1 | 1 | 100.0000 | |
| qzeng-custom | SNP | * | tech_badpromoters | * | 96.8273 | 98.0892 | 95.5975 | 47.8689 | 154 | 3 | 152 | 7 | 1 | 14.2857 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 95.5612 | 96.1290 | 95.0000 | 81.4600 | 149 | 6 | 152 | 8 | 7 | 87.5000 | |
| jpowers-varprowl | INDEL | * | map_l150_m0_e0 | homalt | 95.2978 | 92.6829 | 98.0645 | 90.6514 | 152 | 12 | 152 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.6271 | 95.3642 | 100.0000 | 60.5195 | 144 | 7 | 152 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.7541 | 96.2121 | 99.3464 | 87.0886 | 127 | 5 | 152 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.3734 | 97.4194 | 99.3464 | 82.9050 | 151 | 4 | 152 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.9213 | 152 | 3 | 152 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.7492 | 96.8153 | 98.7013 | 59.0426 | 152 | 5 | 152 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | INDEL | * | map_l150_m0_e0 | homalt | 94.7040 | 92.6829 | 96.8153 | 91.0541 | 152 | 12 | 152 | 5 | 2 | 40.0000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 87.8646 | 98.7097 | 79.1667 | 84.0000 | 153 | 2 | 152 | 40 | 37 | 92.5000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 59.1477 | 49.1961 | 74.1463 | 60.0390 | 153 | 158 | 152 | 53 | 53 | 100.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 23.1120 | 18.1529 | 31.7992 | 75.7484 | 171 | 771 | 152 | 326 | 3 | 0.9202 | |