plotTreeBar: Generate a barplot of a Structure or Admixture run.

In starmie: Population Structure Model Inference and Visualisation

Description

Generate a barplot of a Structure or Admixture run.

Usage

plotTreeBar(x, facet = TRUE, dendro = NULL, cut = NULL)

Arguments

x	a single cluster run object of type struct or admix or Q-matrix
facet	whether or not to split the barplot by cluster. This is recommended.
dendro	an object of class 'hclust' (defaults to hclust with average linkage)
cut	an integer vector output by 'cutree' (defaults to cutree k=ncols(Q))

Examples

# Read file using K = 6 and plot results
k6_data <- exampleStructure("barplot")
# our facetted structure plot with tree
plotTreeBar(k6_data)
# standard 'structure' bar plot with tree
plotTreeBar(k6_data, facet = FALSE)
# Admix example
k3_data <- exampleAdmixture()[[3]]
plotTreeBar(k3_data)

Example output

TableGrob (2 x 1) "arrange": 2 grobs
  z     cells    name           grob
1 1 (1-1,1-1) arrange gtable[layout]
2 2 (2-2,1-1) arrange gtable[layout]
TableGrob (2 x 1) "arrange": 2 grobs
  z     cells    name           grob
1 1 (1-1,1-1) arrange gtable[layout]
2 2 (2-2,1-1) arrange gtable[layout]
TableGrob (2 x 1) "arrange": 2 grobs
  z     cells    name           grob
1 1 (1-1,1-1) arrange gtable[layout]
2 2 (2-2,1-1) arrange gtable[layout]

starmie documentation built on May 1, 2019, 8:01 p.m.