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
echolocatoR::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). Only applies when converting pixel units, as is typical for raster output types.
See also
Other summarise:
CS_bin_plot(),
CS_counts_plot(),
peak_overlap_plot(),
plot_dataset_overlap()
Examples
if (FALSE) { # \dontrun{
merged_DT <- echodata::get_Nalls2019_merged()
super_plot <- echoannot::super_summary_plot(merged_DT = merged_DT,
plot_missense = FALSE)
} # }