Example QTL Fine-Mapping Results with LBF (SuSiE)

A QtlFineMappingResult whose per-entry SuSiE fit carries the full single-effect log-Bayes-factor matrix (lbf_variable), posterior inclusion probabilities, and credible sets. Unlike qtlFineMappingExample (a lightweight fit), this object supports LBF-based downstream analysis such as colocPipeline. Derived from the de-identified protocol_example toy data (gene ENSG00000283047, chr22); all identifiers are synthetic.

Format

A QtlFineMappingResult with two rows (contexts context1 and context2) for trait ENSG00000283047, method susie. Each entry's susieFit carries lbf_variable (single effects x variants), alpha, pip, and credible-set membership.

Examples

data(qtlFineMappingLbfExample)
qtlFineMappingLbfExample
#> QtlFineMappingResult: 2 entries
#>   1 studies, 2 contexts, 1 traits, 1 methods
#>   LD sketch: NULL (individual-level fit)
head(getTopLoci(qtlFineMappingLbfExample))
#> # A tibble: 6 × 27
#>   study   context trait blockId method variant_id chrom    pos A1    A2        N
#>   <chr>   <chr>   <chr> <chr>   <chr>  <chr>      <chr>  <int> <chr> <chr> <dbl>
#> 1 test_s… contex… ENSG… NA      susie  chr22:104… chr22 1.04e7 T     A        49
#> 2 test_s… contex… ENSG… NA      susie  chr22:104… chr22 1.04e7 T     A        49
#> 3 test_s… contex… ENSG… NA      susie  chr22:104… chr22 1.04e7 T     A        49
#> 4 test_s… contex… ENSG… NA      susie  chr22:104… chr22 1.05e7 T     A        49
#> 5 test_s… contex… ENSG… NA      susie  chr22:104… chr22 1.05e7 T     A        49
#> 6 test_s… contex… ENSG… NA      susie  chr22:104… chr22 1.05e7 T     A        49
#> # ℹ 16 more variables: af <dbl>, beta <dbl>, se <dbl>, pip <dbl>, logBF <dbl>,
#> #   cs_95 <chr>, cs_70 <chr>, cs_50 <chr>, cs_95_purity <dbl>,
#> #   cs_70_purity <dbl>, cs_50_purity <dbl>, within_cs_pip <dbl>, gene <chr>,
#> #   event <chr>, grange_start <int>, grange_end <int>