plot_missense: Plot any missense variants

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

Plot any missense variants

Description

Plot any missense variants in fine-mapped data.

Usage

plot_missense(
  merged_DT,
  snp_filter = "Support>0",
  label_yaxis = FALSE,
  x_label = "UCS missense\nmutations",
  show.legend = TRUE,
  show_numbers = FALSE,
  show_plot = TRUE
)

Arguments

merged_DT	Merged fine-mapping results data from finemap_loci.
snp_filter	Filter to use apply to SNPs before plotting.
label_yaxis	Whether to label the y-axis.
x_label	x-axis title.
show.legend	logical. Should this layer be included in the legends? NA, the default, includes if any aesthetics are mapped. FALSE never includes, and TRUE always includes. It can also be a named logical vector to finely select the aesthetics to display.
show_numbers	Whether to plot the numeric values or not.
show_plot	Show plot.

See Also

Other annotate: annotate_missense(), biomart_snp_info(), biomart_snps_to_geneInfo(), haplor_epigenetics_enrichment(), haplor_epigenetics_summary(), haplor_haploreg(), haplor_regulomedb(), snps_by_mutation_type()

Examples

## Not run: 
merged_DT <- echodata::get_Nalls2019_merged()
gg_missense <- plot_missense(
    merged_DT = merged_DT,
    snp_filter = "Support>0"
)
gg_missense <- plot_missense(
    merged_DT = merged_DT,
    snp_filter = "Consensus_SNP==TRUE"
)

## End(Not run)

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