ggplot_manhat: ggplot_manhat

In ThomasChln/snpclust: SNP Feature Summarization for Unsupervised Clustering

Description

Displays Manhattan-like plot for SNPs contributions to Principal Components

Usage

ggplot_manhat(
  pca,
  gdata,
  axes = paste0("PC", 1:10),
  byposition = TRUE,
  n_points = 2000,
  ncol = 5,
  ...
)

Arguments

pca	PCA data frame, requires variable contributions
gdata	GenotypeData object with snpIDs matching df_vars column DIMRED_VARNAME
axes	Axes to plot
byposition	Plot the SNPs by chromosome and poistion or by index
n_points	Maximum number of largest values to plot, for each principal component
ncol	ggplot2::facet_wrap
...	Passed to ggplot2::facet_wrap

Value

ggplot

ThomasChln/snpclust documentation built on June 11, 2020, 4:27 p.m.