PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10251-10300 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | SNP | tv | HG002complexvar | het | 99.8062 | 99.7174 | 99.8951 | 21.1944 | 150308 | 426 | 150523 | 158 | 48 | 30.3797 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 72.9858 | 93.9024 | 59.6899 | 69.3587 | 77 | 5 | 77 | 52 | 48 | 92.3077 | |
| mlin-fermikit | SNP | * | func_cds | * | 99.4453 | 99.2617 | 99.6295 | 19.0809 | 18016 | 134 | 18016 | 67 | 48 | 71.6418 | |
| mlin-fermikit | SNP | * | func_cds | homalt | 99.5356 | 99.8137 | 99.2590 | 20.0683 | 6966 | 13 | 6966 | 52 | 48 | 92.3077 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7610 | 98.5407 | 96.9935 | 76.3552 | 6145 | 91 | 6291 | 195 | 48 | 24.6154 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.4824 | 96.4286 | 96.5363 | 69.2228 | 1728 | 64 | 1728 | 62 | 48 | 77.4194 | |
| hfeng-pmm1 | SNP | * | * | het | 99.9238 | 99.8812 | 99.9665 | 18.1036 | 1871361 | 2226 | 1871236 | 628 | 48 | 7.6433 | |
| hfeng-pmm2 | SNP | ti | * | homalt | 99.9915 | 99.9903 | 99.9927 | 16.7561 | 802960 | 78 | 802952 | 59 | 48 | 81.3559 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.1774 | 93.6073 | 92.7515 | 79.6508 | 820 | 56 | 627 | 49 | 48 | 97.9592 | |
| gduggal-bwavard | INDEL | * | map_l150_m2_e1 | het | 89.0053 | 98.5931 | 81.1170 | 93.2572 | 911 | 13 | 915 | 213 | 48 | 22.5352 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m1_e0 | het | 92.3518 | 98.9247 | 86.5979 | 88.3812 | 1196 | 13 | 1176 | 182 | 48 | 26.3736 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m2_e0 | het | 92.5331 | 98.8057 | 87.0093 | 88.9275 | 1241 | 15 | 1219 | 182 | 48 | 26.3736 | |
| gduggal-bwavard | INDEL | D6_15 | segdup | * | 68.8950 | 65.9686 | 72.0930 | 94.5707 | 126 | 65 | 124 | 48 | 48 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | segdup | het | 77.0066 | 95.6522 | 64.4444 | 95.1837 | 88 | 4 | 87 | 48 | 48 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 81.4677 | 70.5559 | 96.3720 | 80.0416 | 2310 | 964 | 2311 | 87 | 48 | 55.1724 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 88.1401 | 80.0632 | 98.0294 | 59.0247 | 2534 | 631 | 2537 | 51 | 48 | 94.1176 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.1600 | 65.8800 | 96.0669 | 59.7785 | 3908 | 2024 | 3908 | 160 | 48 | 30.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 73.7801 | 62.4350 | 90.1639 | 54.2729 | 600 | 361 | 550 | 60 | 48 | 80.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 83.2380 | 80.8271 | 85.7971 | 78.5980 | 215 | 51 | 296 | 49 | 48 | 97.9592 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e1 | * | 76.5753 | 70.9091 | 83.2258 | 83.8877 | 195 | 80 | 258 | 52 | 48 | 92.3077 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 49.6674 | 33.2688 | 97.9463 | 41.1847 | 1546 | 3101 | 2480 | 52 | 48 | 92.3077 | |
| gduggal-bwafb | SNP | tv | map_l100_m1_e0 | het | 98.4524 | 99.0335 | 97.8781 | 70.7160 | 15268 | 149 | 15268 | 331 | 48 | 14.5015 | |
| gduggal-bwafb | SNP | tv | map_l100_m2_e0 | het | 98.4689 | 99.0556 | 97.8891 | 72.5475 | 15628 | 149 | 15628 | 337 | 48 | 14.2433 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 53.6602 | 38.0295 | 91.1060 | 74.8783 | 799 | 1302 | 799 | 78 | 48 | 61.5385 | |
| gduggal-bwavard | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.9826 | 95.8648 | 92.1728 | 78.1956 | 4567 | 197 | 4522 | 384 | 48 | 12.5000 | |
| gduggal-snapvard | INDEL | * | map_l150_m0_e0 | het | 78.9308 | 95.6012 | 67.2109 | 93.3460 | 326 | 15 | 494 | 241 | 48 | 19.9170 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 2.6388 | 1.3951 | 24.3243 | 79.2910 | 25 | 1767 | 27 | 84 | 48 | 57.1429 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 4.6990 | 2.6273 | 22.2222 | 79.1506 | 16 | 593 | 24 | 84 | 48 | 57.1429 | |
| ghariani-varprowl | INDEL | * | map_l150_m1_e0 | het | 89.9408 | 97.7778 | 83.2669 | 93.2001 | 836 | 19 | 836 | 168 | 48 | 28.5714 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 28.5443 | 93.7568 | 16.8348 | 81.4803 | 856 | 57 | 901 | 4451 | 48 | 1.0784 | |
| gduggal-snapfb | SNP | tv | map_l250_m1_e0 | het | 94.3085 | 95.9709 | 92.7027 | 86.6223 | 1715 | 72 | 1715 | 135 | 48 | 35.5556 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 27.5097 | 21.6216 | 37.8049 | 73.8854 | 48 | 174 | 62 | 102 | 48 | 47.0588 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 78.8127 | 90.1639 | 70.0000 | 64.4444 | 110 | 12 | 112 | 48 | 48 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.4217 | 95.9190 | 98.9723 | 59.1578 | 6064 | 258 | 6067 | 63 | 48 | 76.1905 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.4217 | 95.9190 | 98.9723 | 59.1578 | 6064 | 258 | 6067 | 63 | 48 | 76.1905 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.9509 | 94.7199 | 99.2895 | 61.7800 | 7965 | 444 | 7965 | 57 | 48 | 84.2105 | |
| jmaeng-gatk | SNP | * | map_l100_m0_e0 | * | 82.8475 | 71.9345 | 97.6638 | 84.1509 | 23624 | 9217 | 23620 | 565 | 48 | 8.4956 | |
| jli-custom | SNP | * | map_l100_m0_e0 | het | 98.8927 | 98.5522 | 99.2355 | 65.8743 | 20898 | 307 | 20898 | 161 | 48 | 29.8137 | |
| jli-custom | SNP | * | map_l125_m0_e0 | * | 98.9095 | 98.4885 | 99.3340 | 69.7637 | 19092 | 293 | 19092 | 128 | 48 | 37.5000 | |
| jli-custom | SNP | * | map_l150_m1_e0 | het | 98.8306 | 98.4521 | 99.2121 | 72.9358 | 19017 | 299 | 19014 | 151 | 48 | 31.7881 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.8671 | 92.3787 | 99.6294 | 28.3565 | 12715 | 1049 | 12903 | 48 | 48 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.8065 | 92.2605 | 99.6360 | 30.7769 | 12946 | 1086 | 13139 | 48 | 48 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.5858 | 97.9822 | 99.1968 | 53.1729 | 15442 | 318 | 15438 | 125 | 48 | 38.4000 | |
| jpowers-varprowl | INDEL | * | map_l150_m1_e0 | het | 92.1648 | 92.8655 | 91.4747 | 91.4533 | 794 | 61 | 794 | 74 | 48 | 64.8649 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002complexvar | * | 97.6527 | 96.5862 | 98.7430 | 52.4974 | 5121 | 181 | 4949 | 63 | 48 | 76.1905 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.1173 | 93.0761 | 99.3641 | 35.8818 | 7501 | 558 | 7500 | 48 | 48 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.1173 | 93.0761 | 99.3641 | 35.8818 | 7501 | 558 | 7500 | 48 | 48 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002complexvar | * | 99.2488 | 98.7471 | 99.7557 | 52.7857 | 32944 | 418 | 32259 | 79 | 48 | 60.7595 | |
| dgrover-gatk | INDEL | I6_15 | HG002compoundhet | het | 86.2668 | 98.0769 | 76.9953 | 84.5091 | 204 | 4 | 164 | 49 | 48 | 97.9592 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8137 | 96.5992 | 99.0592 | 63.6797 | 6107 | 215 | 6107 | 58 | 48 | 82.7586 | |