allele_distribution: Geographic distribution of alleles

In AndersenLab/cegwas: A set of functions to process phenotype data, perform GWAS, and perform post-mapping data processing for C. elegans.

Description

allele_distribution uses the ggplot2 package to plot the global distribution of an allele of interest.

Usage

allele_distribution(locus = "top-2", variant = 797, location = NA,
  colors = c("purple", "salmon"), alpha = 0.8)

Arguments

locus	A gene or position. Examples: top-2, II:14425175, or "WBGene00010785"
variant	character value corresponding amino acid change you are interested in plotting. Currently only supports visualization of SNVs that alter an amino acid residue.
location	region to restrict plot to. Uses google api for lookup. Examples: europe.
colors	character vector containing two colors. The first element of the vector will be the ALT genotype and the second will be the REF genotype. Default values are c("purple","salmon").
alpha	Set marker alpha.

Value

Outputs a ggplot object containing a visualization of the global distribution of allele of interest

AndersenLab/cegwas documentation built on March 6, 2020, 1:10 a.m.