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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69451-69500 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | D16_PLUS | * | hetalt | 79.5358 | 66.1148 | 99.7932 | 43.8033 | 1278 | 655 | 1448 | 3 | 2 | 66.6667 | |
| bgallagher-sentieon | SNP | tv | HG002compoundhet | homalt | 99.8524 | 99.9115 | 99.7933 | 42.7775 | 3385 | 3 | 3380 | 7 | 6 | 85.7143 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4851 | 99.1786 | 99.7934 | 67.2973 | 483 | 4 | 483 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4851 | 99.1786 | 99.7934 | 64.4901 | 483 | 4 | 483 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4851 | 99.1786 | 99.7934 | 64.5161 | 483 | 4 | 483 | 1 | 1 | 100.0000 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.1030 | 98.4221 | 99.7934 | 73.4358 | 499 | 8 | 483 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4851 | 99.1786 | 99.7934 | 64.4118 | 483 | 4 | 483 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | SNP | * | map_l250_m1_e0 | homalt | 98.9560 | 98.1324 | 99.7936 | 88.2570 | 2417 | 46 | 2417 | 5 | 5 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8967 | 100.0000 | 99.7936 | 64.0045 | 968 | 0 | 967 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e1 | het | 99.1089 | 98.4335 | 99.7937 | 64.2644 | 30475 | 485 | 30477 | 63 | 24 | 38.0952 | |
| rpoplin-dv42 | SNP | tv | map_l125_m1_e0 | homalt | 99.4262 | 99.0614 | 99.7937 | 67.2577 | 5805 | 55 | 5805 | 12 | 12 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8968 | 100.0000 | 99.7938 | 64.2989 | 968 | 0 | 968 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8968 | 100.0000 | 99.7938 | 64.2066 | 968 | 0 | 968 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8968 | 100.0000 | 99.7938 | 63.5064 | 968 | 0 | 968 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8968 | 100.0000 | 99.7938 | 63.6432 | 968 | 0 | 968 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l100_m2_e0 | * | 99.3135 | 98.8379 | 99.7938 | 59.0138 | 48392 | 569 | 48394 | 100 | 29 | 29.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8968 | 100.0000 | 99.7938 | 64.2462 | 968 | 0 | 968 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8968 | 100.0000 | 99.7938 | 64.2989 | 968 | 0 | 968 | 2 | 2 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.2997 | 91.1929 | 99.7939 | 58.4384 | 15480 | 1495 | 15495 | 32 | 23 | 71.8750 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.2997 | 91.1929 | 99.7939 | 58.4384 | 15480 | 1495 | 15495 | 32 | 23 | 71.8750 | |
| rpoplin-dv42 | SNP | ti | map_l100_m2_e1 | homalt | 99.6670 | 99.5404 | 99.7940 | 62.9692 | 18409 | 85 | 18410 | 38 | 36 | 94.7368 | |
| gduggal-snapfb | SNP | ti | map_l100_m1_e0 | homalt | 98.4338 | 97.1102 | 99.7940 | 67.2966 | 17441 | 519 | 17442 | 36 | 20 | 55.5556 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8583 | 99.9226 | 99.7940 | 60.8923 | 3875 | 3 | 3875 | 8 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | * | * | 99.3139 | 98.8385 | 99.7940 | 55.2555 | 148913 | 1750 | 148225 | 306 | 127 | 41.5033 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5573 | 99.3217 | 99.7940 | 54.6839 | 25187 | 172 | 25185 | 52 | 39 | 75.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8969 | 100.0000 | 99.7940 | 63.6602 | 968 | 0 | 969 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | SNP | ti | map_l100_m0_e0 | homalt | 99.7813 | 99.7685 | 99.7941 | 63.0398 | 7756 | 18 | 7756 | 16 | 7 | 43.7500 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4732 | 97.1869 | 99.7941 | 31.3060 | 1451 | 42 | 1454 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l125_m2_e1 | * | 91.2494 | 84.0525 | 99.7941 | 76.0425 | 25694 | 4875 | 25690 | 53 | 29 | 54.7170 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4732 | 97.1869 | 99.7941 | 31.3060 | 1451 | 42 | 1454 | 3 | 3 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.8196 | 92.1495 | 99.7942 | 70.9504 | 493 | 42 | 485 | 1 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | tv | map_l125_m2_e1 | homalt | 98.0309 | 96.3286 | 99.7943 | 68.8883 | 5851 | 223 | 5823 | 12 | 9 | 75.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.5421 | 97.3208 | 99.7944 | 32.2970 | 1453 | 40 | 1456 | 3 | 3 | 100.0000 | |
| gduggal-snapfb | SNP | ti | map_l100_m2_e1 | homalt | 98.4714 | 97.1829 | 99.7946 | 68.9893 | 17973 | 521 | 17974 | 37 | 21 | 56.7568 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7947 | 99.7947 | 99.7947 | 67.0946 | 486 | 1 | 486 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e0 | het | 99.1023 | 98.4194 | 99.7947 | 64.2605 | 30138 | 484 | 30140 | 62 | 24 | 38.7097 | |
| ndellapenna-hhga | SNP | * | map_l250_m1_e0 | homalt | 99.2653 | 98.7414 | 99.7948 | 85.6165 | 2432 | 31 | 2432 | 5 | 5 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7712 | 99.7476 | 99.7949 | 55.7977 | 25295 | 64 | 25298 | 52 | 25 | 48.0769 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8974 | 100.0000 | 99.7951 | 64.8415 | 487 | 0 | 487 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7270 | 99.6589 | 99.7951 | 46.6278 | 1461 | 5 | 1461 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8974 | 100.0000 | 99.7951 | 68.0419 | 487 | 0 | 487 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8974 | 100.0000 | 99.7951 | 67.6178 | 487 | 0 | 487 | 1 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.6974 | 88.3019 | 99.7951 | 47.9744 | 468 | 62 | 487 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8974 | 100.0000 | 99.7951 | 68.0419 | 487 | 0 | 487 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8974 | 100.0000 | 99.7951 | 67.2263 | 487 | 0 | 487 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8974 | 100.0000 | 99.7951 | 67.0715 | 487 | 0 | 487 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8974 | 100.0000 | 99.7951 | 67.7888 | 487 | 0 | 487 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | homalt | 99.7748 | 99.7543 | 99.7952 | 71.0227 | 7309 | 18 | 7309 | 15 | 6 | 40.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.0879 | 96.4380 | 99.7952 | 66.9971 | 1462 | 54 | 1462 | 3 | 1 | 33.3333 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7481 | 97.7227 | 99.7952 | 31.6698 | 1459 | 34 | 1462 | 3 | 3 | 100.0000 | |