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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
46101-46150 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 44.4518 | 41.8244 | 47.4313 | 70.0067 | 1701 | 2366 | 1708 | 1893 | 1866 | 98.5737 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.7778 | 99.5565 | 100.0000 | 70.0067 | 1347 | 6 | 1341 | 0 | 0 | ||
| jlack-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.0943 | 98.4288 | 99.7688 | 70.0054 | 3884 | 62 | 3884 | 9 | 6 | 66.6667 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.6951 | 91.4187 | 91.9731 | 70.0049 | 5561 | 522 | 5603 | 489 | 348 | 71.1656 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 81.3693 | 71.3832 | 94.6037 | 70.0040 | 11250 | 4510 | 11255 | 642 | 179 | 27.8816 | |
| hfeng-pmm1 | SNP | ti | map_l125_m0_e0 | homalt | 99.6547 | 99.6215 | 99.6881 | 70.0040 | 4474 | 17 | 4474 | 14 | 5 | 35.7143 | |
| jli-custom | SNP | * | map_l150_m2_e0 | homalt | 99.7002 | 99.4871 | 99.9142 | 70.0015 | 11639 | 60 | 11639 | 10 | 10 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.6522 | 91.6667 | 100.0000 | 70.0000 | 11 | 1 | 12 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 86.9565 | 76.9231 | 100.0000 | 70.0000 | 10 | 3 | 12 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 2 | 0 | 3 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 2 | 0 | 3 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 2 | 0 | 3 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 2 | 0 | 3 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | ti | map_l125_m0_e0 | hetalt | 85.7143 | 75.0000 | 100.0000 | 70.0000 | 6 | 2 | 6 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I16_PLUS | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 9 | 0 | 9 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4595 | 100.0000 | 98.9247 | 70.0000 | 92 | 0 | 92 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l125_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 24 | 0 | 24 | 0 | 0 | ||
| astatham-gatk | SNP | ti | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 24 | 0 | 24 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 70.0000 | 0 | 0 | 0 | 6 | 0 | 0.0000 | ||
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 96.0000 | 92.3077 | 100.0000 | 70.0000 | 12 | 1 | 12 | 0 | 0 | ||
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 69.2913 | 80.0000 | 61.1111 | 70.0000 | 40 | 10 | 33 | 21 | 16 | 76.1905 | |
| ckim-gatk | INDEL | I16_PLUS | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 9 | 0 | 9 | 0 | 0 | ||
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4595 | 100.0000 | 98.9247 | 70.0000 | 92 | 0 | 92 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 77.8761 | 64.7059 | 97.7778 | 70.0000 | 44 | 24 | 44 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 9 | 0 | 9 | 0 | 0 | ||
| dgrover-gatk | SNP | ti | map_l150_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 70.0000 | 15 | 0 | 15 | 0 | 0 | ||
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.2405 | 96.8208 | 99.7024 | 70.0000 | 335 | 11 | 335 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4595 | 100.0000 | 98.9247 | 70.0000 | 92 | 0 | 92 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 81.8182 | 69.2308 | 100.0000 | 70.0000 | 9 | 4 | 9 | 0 | 0 | ||
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 91.6667 | 91.6667 | 91.6667 | 70.0000 | 33 | 3 | 33 | 3 | 3 | 100.0000 | |
| qzeng-custom | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 0.0000 | 33.3333 | 70.0000 | 0 | 0 | 1 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | tech_badpromoters | * | 28.5714 | 25.0000 | 33.3333 | 70.0000 | 1 | 3 | 1 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | tech_badpromoters | homalt | 70.5882 | 54.5455 | 100.0000 | 70.0000 | 18 | 15 | 18 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 9.9792 | 5.2980 | 85.7143 | 70.0000 | 8 | 143 | 18 | 3 | 2 | 66.6667 | |
| gduggal-bwaplat | INDEL | I16_PLUS | func_cds | het | 50.0000 | 33.3333 | 100.0000 | 70.0000 | 3 | 6 | 3 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.1970 | 96.8085 | 86.2004 | 69.9943 | 455 | 15 | 456 | 73 | 58 | 79.4521 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 89.7973 | 90.4000 | 89.2026 | 69.9879 | 2712 | 288 | 2875 | 348 | 312 | 89.6552 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.0520 | 90.0033 | 98.4822 | 69.9861 | 8220 | 913 | 8305 | 128 | 13 | 10.1562 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.0520 | 90.0033 | 98.4822 | 69.9861 | 8220 | 913 | 8305 | 128 | 13 | 10.1562 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 79.0331 | 95.6616 | 67.3294 | 69.9860 | 882 | 40 | 1727 | 838 | 592 | 70.6444 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 94.4254 | 93.6982 | 95.1641 | 69.9844 | 565 | 38 | 551 | 28 | 12 | 42.8571 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 93.8667 | 90.7216 | 97.2376 | 69.9834 | 352 | 36 | 352 | 10 | 9 | 90.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8049 | 99.6537 | 99.9566 | 69.9831 | 11512 | 40 | 11514 | 5 | 2 | 40.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8049 | 99.6537 | 99.9566 | 69.9831 | 11512 | 40 | 11514 | 5 | 2 | 40.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0047 | 98.3051 | 99.7143 | 69.9828 | 348 | 6 | 349 | 1 | 1 | 100.0000 | |
| cchapple-custom | SNP | * | map_l100_m2_e1 | * | 97.5551 | 97.7575 | 97.3536 | 69.9828 | 73061 | 1676 | 73060 | 1986 | 410 | 20.6445 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0047 | 98.3051 | 99.7143 | 69.9828 | 348 | 6 | 349 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | SNP | ti | map_l125_m0_e0 | homalt | 99.6883 | 99.7105 | 99.6661 | 69.9826 | 4478 | 13 | 4478 | 15 | 6 | 40.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.5510 | 97.9508 | 97.1545 | 69.9817 | 478 | 10 | 478 | 14 | 12 | 85.7143 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.3289 | 97.6004 | 97.0588 | 69.9817 | 1749 | 43 | 1749 | 53 | 38 | 71.6981 | |