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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13401-13450 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7825 | 99.5948 | 99.9709 | 62.1467 | 3441 | 14 | 3441 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7825 | 99.5948 | 99.9709 | 63.5497 | 3441 | 14 | 3441 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6953 | 99.4211 | 99.9709 | 62.6075 | 3435 | 20 | 3435 | 1 | 1 | 100.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7240 | 99.4783 | 99.9709 | 35.3959 | 3432 | 18 | 3434 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7680 | 99.5658 | 99.9709 | 62.5612 | 3440 | 15 | 3440 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | SNP | * | func_cds | homalt | 99.5466 | 99.1259 | 99.9709 | 21.8523 | 6918 | 61 | 6875 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 95.4604 | 91.3394 | 99.9708 | 56.0929 | 10209 | 968 | 10266 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4618 | 98.9580 | 99.9708 | 57.7056 | 3419 | 36 | 3424 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | * | map_siren | homalt | 81.0505 | 68.1522 | 99.9707 | 46.5592 | 37590 | 17566 | 37591 | 11 | 11 | 100.0000 | |
| ckim-isaac | SNP | ti | func_cds | * | 99.4788 | 98.9918 | 99.9707 | 19.0273 | 13648 | 139 | 13648 | 4 | 2 | 50.0000 | |
| ckim-vqsr | SNP | tv | map_l100_m1_e0 | homalt | 54.6448 | 37.5981 | 99.9706 | 80.1633 | 3400 | 5643 | 3400 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.9337 | 94.0758 | 99.9706 | 28.2016 | 6749 | 425 | 6793 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9066 | 99.8428 | 99.9705 | 54.1001 | 10162 | 16 | 10162 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e1 | homalt | 72.8475 | 57.3011 | 99.9705 | 80.8330 | 6777 | 5050 | 6777 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | ti | HG002complexvar | het | 99.9353 | 99.9002 | 99.9704 | 16.9557 | 314452 | 314 | 314418 | 93 | 32 | 34.4086 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9852 | 100.0000 | 99.9704 | 37.6087 | 6745 | 0 | 6745 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6740 | 93.5880 | 99.9704 | 27.5688 | 6714 | 460 | 6758 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9381 | 99.9059 | 99.9703 | 56.7400 | 20180 | 19 | 20180 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9703 | 99.9703 | 99.9703 | 36.7854 | 6743 | 2 | 6743 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9480 | 99.9257 | 99.9703 | 57.5983 | 20184 | 15 | 20184 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9505 | 99.9307 | 99.9703 | 51.1679 | 10095 | 7 | 10095 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9455 | 99.9208 | 99.9703 | 62.5348 | 10089 | 8 | 10089 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6959 | 95.5227 | 99.9703 | 33.3773 | 10006 | 469 | 10089 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9434 | 94.0945 | 99.9703 | 27.5328 | 6692 | 420 | 6736 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9306 | 99.8911 | 99.9703 | 61.3700 | 10086 | 11 | 10086 | 3 | 3 | 100.0000 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5563 | 99.1458 | 99.9703 | 67.1493 | 16830 | 145 | 16830 | 5 | 5 | 100.0000 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5563 | 99.1458 | 99.9703 | 67.1493 | 16830 | 145 | 16830 | 5 | 5 | 100.0000 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9481 | 99.9259 | 99.9703 | 34.6642 | 6740 | 5 | 6740 | 2 | 2 | 100.0000 | |
| ckim-dragen | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9158 | 99.8613 | 99.9703 | 61.4918 | 10083 | 14 | 10085 | 3 | 3 | 100.0000 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9629 | 99.9555 | 99.9703 | 35.4085 | 6742 | 3 | 6742 | 2 | 2 | 100.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9554 | 99.9406 | 99.9703 | 49.4797 | 10096 | 6 | 10096 | 3 | 3 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9407 | 99.9110 | 99.9703 | 35.3939 | 6739 | 6 | 6739 | 2 | 2 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9009 | 99.8317 | 99.9703 | 49.2989 | 10085 | 17 | 10085 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9629 | 99.9555 | 99.9703 | 35.1476 | 6742 | 3 | 6742 | 2 | 2 | 100.0000 | |
| astatham-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8587 | 99.7475 | 99.9702 | 56.3085 | 20148 | 51 | 20148 | 6 | 6 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8165 | 99.6633 | 99.9702 | 61.6256 | 10063 | 34 | 10063 | 3 | 3 | 100.0000 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7342 | 99.4993 | 99.9702 | 64.1818 | 16890 | 85 | 16793 | 5 | 3 | 60.0000 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7342 | 99.4993 | 99.9702 | 64.1818 | 16890 | 85 | 16793 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6815 | 93.6024 | 99.9702 | 26.8790 | 6657 | 455 | 6701 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9769 | 94.1577 | 99.9702 | 43.4270 | 3320 | 206 | 3360 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9769 | 94.1577 | 99.9702 | 43.4270 | 3320 | 206 | 3360 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7995 | 99.6294 | 99.9702 | 32.6604 | 6720 | 25 | 6703 | 2 | 1 | 50.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e0 | homalt | 72.7253 | 57.1502 | 99.9701 | 80.8789 | 6686 | 5013 | 6686 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7369 | 99.5048 | 99.9701 | 61.6836 | 10047 | 50 | 10047 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | HG002complexvar | * | 99.9216 | 99.8731 | 99.9701 | 17.4429 | 507791 | 645 | 507725 | 152 | 130 | 85.5263 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.4355 | 95.0263 | 99.9701 | 33.2469 | 9954 | 521 | 10036 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5726 | 99.1784 | 99.9701 | 49.4910 | 10019 | 83 | 10019 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5376 | 99.1089 | 99.9700 | 56.4901 | 20019 | 180 | 20019 | 6 | 6 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5025 | 99.0393 | 99.9700 | 61.7944 | 10000 | 97 | 10000 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4224 | 98.8809 | 99.9700 | 61.6808 | 9984 | 113 | 9996 | 3 | 3 | 100.0000 | |