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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13951-14000 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | SNP | tv | map_l100_m2_e1 | homalt | 99.8278 | 99.7097 | 99.9461 | 61.3020 | 9275 | 27 | 9274 | 5 | 3 | 60.0000 | |
| ckim-gatk | SNP | tv | map_l125_m2_e0 | homalt | 76.1523 | 61.5091 | 99.9460 | 77.4235 | 3701 | 2316 | 3701 | 2 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.2182 | 92.7585 | 99.9459 | 61.2554 | 5508 | 430 | 5546 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.1910 | 92.7080 | 99.9459 | 61.2682 | 5505 | 433 | 5543 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5825 | 99.2217 | 99.9459 | 39.6327 | 7394 | 58 | 7391 | 4 | 1 | 25.0000 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.9143 | 99.8827 | 99.9458 | 56.3849 | 11071 | 13 | 11067 | 6 | 4 | 66.6667 | |
| hfeng-pmm1 | INDEL | * | * | hetalt | 96.9096 | 94.0524 | 99.9458 | 58.8135 | 23736 | 1501 | 23960 | 13 | 12 | 92.3077 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.9097 | 99.8737 | 99.9458 | 56.0006 | 11070 | 14 | 11066 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.0184 | 92.3880 | 99.9457 | 61.4714 | 5486 | 452 | 5522 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | SNP | ti | HG002complexvar | homalt | 99.8904 | 99.8351 | 99.9457 | 18.2578 | 193145 | 319 | 193159 | 105 | 88 | 83.8095 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.9252 | 99.9048 | 99.9456 | 33.1240 | 7348 | 7 | 7343 | 4 | 3 | 75.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m2_e0 | homalt | 99.8261 | 99.7070 | 99.9456 | 61.2864 | 9187 | 27 | 9186 | 5 | 3 | 60.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7252 | 99.5058 | 99.9456 | 54.0983 | 14697 | 73 | 14698 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7626 | 99.5802 | 99.9456 | 54.3815 | 14708 | 62 | 14709 | 8 | 4 | 50.0000 | |
| dgrover-gatk | SNP | * | map_siren | homalt | 99.8121 | 99.6791 | 99.9455 | 50.4067 | 54979 | 177 | 54970 | 30 | 26 | 86.6667 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6562 | 99.3685 | 99.9455 | 58.6114 | 11014 | 70 | 11010 | 6 | 4 | 66.6667 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e1 | homalt | 48.4929 | 32.0126 | 99.9455 | 86.0864 | 3668 | 7790 | 3668 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | homalt | 84.0675 | 72.5428 | 99.9455 | 68.3772 | 20164 | 7632 | 20164 | 11 | 7 | 63.6364 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8935 | 99.8416 | 99.9455 | 56.0535 | 20167 | 32 | 20178 | 11 | 11 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9133 | 99.8812 | 99.9455 | 56.3725 | 20175 | 24 | 20175 | 11 | 7 | 63.6364 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m1_e0 | homalt | 99.7369 | 99.5292 | 99.9454 | 62.9489 | 10993 | 52 | 10993 | 6 | 6 | 100.0000 | |
| astatham-gatk | SNP | * | map_siren | homalt | 99.7411 | 99.5377 | 99.9454 | 50.1425 | 54901 | 255 | 54892 | 30 | 26 | 86.6667 | |
| gduggal-bwaplat | SNP | ti | map_l125_m1_e0 | homalt | 66.2065 | 49.4975 | 99.9451 | 78.1716 | 5467 | 5578 | 5460 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6854 | 99.4272 | 99.9450 | 44.5461 | 3645 | 21 | 3633 | 2 | 2 | 100.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9175 | 99.8900 | 99.9450 | 60.3037 | 10899 | 12 | 10895 | 6 | 5 | 83.3333 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7438 | 99.5435 | 99.9450 | 57.4906 | 16354 | 75 | 16352 | 9 | 2 | 22.2222 | |
| asubramanian-gatk | SNP | ti | segdup | homalt | 98.2382 | 96.5889 | 99.9449 | 87.7431 | 7249 | 256 | 7249 | 4 | 4 | 100.0000 | |
| astatham-gatk | SNP | * | func_cds | * | 99.8621 | 99.7796 | 99.9448 | 24.2600 | 18110 | 40 | 18107 | 10 | 0 | 0.0000 | |
| ckim-vqsr | SNP | ti | map_l150_m1_e0 | homalt | 39.6323 | 24.7168 | 99.9448 | 90.0193 | 1811 | 5516 | 1811 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | * | map_l100_m2_e0 | homalt | 83.9525 | 72.3722 | 99.9448 | 68.4557 | 19919 | 7604 | 19919 | 11 | 7 | 63.6364 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8164 | 99.6885 | 99.9447 | 54.6733 | 25280 | 79 | 25281 | 14 | 10 | 71.4286 | |
| ckim-vqsr | SNP | * | map_l125_m2_e1 | homalt | 47.2295 | 30.9206 | 99.9447 | 86.7543 | 5421 | 12111 | 5421 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | homalt | 48.2602 | 31.8102 | 99.9447 | 86.1579 | 3613 | 7745 | 3613 | 2 | 2 | 100.0000 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5556 | 99.1696 | 99.9446 | 40.0259 | 18032 | 151 | 18029 | 10 | 2 | 20.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m1_e0 | homalt | 99.8284 | 99.7125 | 99.9446 | 58.6136 | 9017 | 26 | 9016 | 5 | 3 | 60.0000 | |
| ckim-vqsr | SNP | ti | HG002compoundhet | homalt | 98.6436 | 97.3763 | 99.9445 | 31.0556 | 7200 | 194 | 7200 | 4 | 4 | 100.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8246 | 99.7050 | 99.9445 | 72.0298 | 5407 | 16 | 5407 | 3 | 2 | 66.6667 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8246 | 99.7050 | 99.9445 | 72.0298 | 5407 | 16 | 5407 | 3 | 2 | 66.6667 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7876 | 99.6312 | 99.9445 | 71.5069 | 5403 | 20 | 5403 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7876 | 99.6312 | 99.9445 | 71.5069 | 5403 | 20 | 5403 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4474 | 98.9552 | 99.9444 | 60.4265 | 10797 | 114 | 10794 | 6 | 4 | 66.6667 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6300 | 99.3177 | 99.9443 | 71.5425 | 5386 | 37 | 5386 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6300 | 99.3177 | 99.9443 | 71.5425 | 5386 | 37 | 5386 | 3 | 3 | 100.0000 | |
| cchapple-custom | SNP | ti | HG002compoundhet | homalt | 99.5445 | 99.1480 | 99.9443 | 27.6293 | 7331 | 63 | 7173 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m0_e0 | homalt | 69.6311 | 53.4267 | 99.9443 | 78.9757 | 3586 | 3126 | 3586 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | homalt | 98.3931 | 96.8894 | 99.9442 | 30.6032 | 7164 | 230 | 7164 | 4 | 3 | 75.0000 | |
| ckim-gatk | SNP | * | map_l100_m0_e0 | homalt | 76.2549 | 61.6437 | 99.9442 | 71.4939 | 7163 | 4457 | 7163 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | SNP | ti | * | het | 99.9215 | 99.8989 | 99.9442 | 17.8405 | 1280595 | 1296 | 1280545 | 715 | 24 | 3.3566 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 93.7369 | 88.2556 | 99.9442 | 59.1703 | 5373 | 715 | 5371 | 3 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | * | HG002complexvar | homalt | 99.8832 | 99.8222 | 99.9441 | 19.8833 | 288062 | 513 | 288090 | 161 | 137 | 85.0932 | |