PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25251-25300 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | D1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 43.7500 | 9 | 0 | 9 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 43.7500 | 9 | 0 | 9 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 43.7500 | 9 | 0 | 9 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.1732 | 96.4119 | 100.0000 | 43.7500 | 618 | 23 | 621 | 0 | 0 | ||
| jlack-gatk | INDEL | D1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 43.7500 | 9 | 0 | 9 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 43.7500 | 9 | 0 | 9 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I1_5 | tech_badpromoters | het | 94.1176 | 100.0000 | 88.8889 | 43.7500 | 8 | 0 | 8 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 43.7500 | 9 | 0 | 9 | 0 | 0 | ||
| dgrover-gatk | INDEL | D1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 43.7500 | 9 | 0 | 9 | 0 | 0 | ||
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 80.0000 | 66.6667 | 100.0000 | 43.7500 | 8 | 4 | 9 | 0 | 0 | ||
| egarrison-hhga | INDEL | D1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 43.7500 | 9 | 0 | 9 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 43.7500 | 9 | 0 | 9 | 0 | 0 | ||
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2513 | 99.5095 | 97.0246 | 43.7566 | 4666 | 23 | 4663 | 143 | 1 | 0.6993 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 56.2841 | 56.5217 | 56.0484 | 43.7642 | 130 | 100 | 139 | 109 | 101 | 92.6606 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.8160 | 99.7792 | 99.8528 | 43.7655 | 4068 | 9 | 4071 | 6 | 1 | 16.6667 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 55.0595 | 38.1013 | 99.2214 | 43.7774 | 903 | 1467 | 892 | 7 | 6 | 85.7143 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4125 | 98.9911 | 99.8375 | 43.7900 | 2453 | 25 | 2458 | 4 | 1 | 25.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 36.8670 | 24.7423 | 72.2944 | 43.7956 | 96 | 292 | 334 | 128 | 127 | 99.2188 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 75.9907 | 61.6646 | 98.9879 | 43.7998 | 489 | 304 | 489 | 5 | 5 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.2544 | 100.0000 | 96.5686 | 43.8017 | 197 | 0 | 197 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5421 | 99.6910 | 99.3935 | 43.8031 | 10325 | 32 | 10325 | 63 | 62 | 98.4127 | |
| mlin-fermikit | INDEL | D16_PLUS | * | hetalt | 79.5358 | 66.1148 | 99.7932 | 43.8033 | 1278 | 655 | 1448 | 3 | 2 | 66.6667 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.7847 | 96.0993 | 93.5056 | 43.8048 | 9953 | 404 | 9949 | 691 | 301 | 43.5601 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 92.3995 | 86.2069 | 99.5506 | 43.8131 | 975 | 156 | 443 | 2 | 2 | 100.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0073 | 98.6439 | 99.3734 | 43.8166 | 6183 | 85 | 6185 | 39 | 38 | 97.4359 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4416 | 99.2346 | 99.6494 | 43.8167 | 3630 | 28 | 5401 | 19 | 13 | 68.4211 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 58.5321 | 47.8735 | 75.2959 | 43.8204 | 2544 | 2770 | 8714 | 2859 | 2841 | 99.3704 | |
| eyeh-varpipe | INDEL | I16_PLUS | HG002complexvar | het | 50.6283 | 38.3459 | 74.4868 | 43.8221 | 255 | 410 | 254 | 87 | 87 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.0230 | 88.4886 | 91.6115 | 43.8230 | 6534 | 850 | 11631 | 1065 | 307 | 28.8263 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.6739 | 80.2710 | 85.2252 | 43.8259 | 948 | 233 | 946 | 164 | 164 | 100.0000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9659 | 99.9318 | 100.0000 | 43.8267 | 1465 | 1 | 1465 | 0 | 0 | ||
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8642 | 99.7447 | 99.9840 | 43.8336 | 6252 | 16 | 6252 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4152 | 96.8799 | 100.0000 | 43.8344 | 621 | 20 | 624 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.3258 | 97.0402 | 99.6459 | 43.8344 | 10754 | 328 | 10693 | 38 | 34 | 89.4737 | |
| ckim-dragen | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 43.8406 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 58.0207 | 41.0019 | 99.1935 | 43.8406 | 663 | 954 | 615 | 5 | 5 | 100.0000 | |
| raldana-dualsentieon | SNP | * | HG002compoundhet | het | 95.9874 | 92.3755 | 99.8932 | 43.8424 | 13097 | 1081 | 13096 | 14 | 7 | 50.0000 | |
| anovak-vg | INDEL | * | func_cds | het | 74.7761 | 69.6262 | 80.7487 | 43.8438 | 149 | 65 | 151 | 36 | 19 | 52.7778 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.6633 | 97.6712 | 99.6756 | 43.8460 | 2139 | 51 | 2151 | 7 | 6 | 85.7143 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 90.6005 | 89.5230 | 91.7043 | 43.8461 | 16346 | 1913 | 17079 | 1545 | 1043 | 67.5081 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 76.2290 | 62.1302 | 98.6047 | 43.8642 | 105 | 64 | 424 | 6 | 6 | 100.0000 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 55.1982 | 38.2022 | 99.4371 | 43.8652 | 3196 | 5170 | 3180 | 18 | 16 | 88.8889 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.9067 | 99.8135 | 100.0000 | 43.8707 | 1606 | 3 | 1598 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 43.8710 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.5455 | 96.2248 | 94.8757 | 43.8826 | 9966 | 391 | 9961 | 538 | 202 | 37.5465 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 47.6190 | 44.4444 | 51.2821 | 43.8849 | 12 | 15 | 40 | 38 | 35 | 92.1053 | |
| ndellapenna-hhga | SNP | tv | HG002compoundhet | homalt | 98.4034 | 99.1440 | 97.6737 | 43.8897 | 3359 | 29 | 3359 | 80 | 78 | 97.5000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 59.0700 | 91.8519 | 43.5331 | 43.8938 | 124 | 11 | 138 | 179 | 177 | 98.8827 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.6796 | 98.9777 | 98.3834 | 43.8974 | 2130 | 22 | 2130 | 35 | 21 | 60.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.6170 | 88.0000 | 100.0000 | 43.9024 | 22 | 3 | 23 | 0 | 0 | ||