super_summary_plot: Merge all summary plots into one super plot

In RajLabMSSM/echoannot: echoverse module: Annotate fine-mapping results

Merge all summary plots into one super plot

Description

Merge all summary plots into one super plot

Usage

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

## Not run: 
merged_DT <- echodata::get_Nalls2019_merged() 
super_plot <- echoannot::super_summary_plot(merged_DT = merged_DT,
                                            plot_missense = FALSE)

## End(Not run)

RajLabMSSM/echoannot documentation built on Oct. 26, 2023, 2:41 p.m.