Merge all summary plots into one super plot

Merge all summary plots into one super plot

super_summary_plot(
  merged_DT,
  snp_filter = "Consensus_SNP==TRUE",
  coloc_results = NULL,
  credset_thresh = 0.8,
  plot_missense = TRUE,
  show_plot = TRUE,
  save_plot = FALSE,
  height = 15,
  width = 13,
  dpi = 300
)

Arguments

merged_DT

Merged fine-mapping results data from finemap_loci.

snp_filter

Filter to use apply to SNPs before plotting.

coloc_results

Colocalization results from catalogueR.

credset_thresh

The minimum mean Posterior Probability (across all fine-mapping methods used) of SNPs to be included in the "mean.CS" column.

plot_missense

Whether to include the missense mutations plot. Warning: Can take a lot time to query Biomart.

show_plot

Show plot.

save_plot

Save plot.

height

Plot height.

width

Plot width.

dpi

Plot resolution. Also accepts a string input: "retina" (320), "print" (300), or "screen" (72). Applies only to raster output types.

See also

Other summarise: CS_bin_plot(), CS_counts_plot(), peak_overlap_plot(), plot_dataset_overlap()

Examples

if (FALSE) {
merged_DT <- echodata::get_Nalls2019_merged() 
super_plot <- echoannot::super_summary_plot(merged_DT = merged_DT,
                                            plot_missense = FALSE)
}