plot_logmap: Plot logmap Plot logmap coordinates using the first two...
In svteichman/TreeVizPackage: Tree Visualization Package

plot_logmap

R Documentation

Plot logmap Plot logmap coordinates using the first two principal components.

Description

Plot logmap Plot logmap coordinates using the first two principal components.

Usage

plot_logmap(
  vectors,
  base_name,
  other_cons_name = NULL,
  gene_names = NULL,
  col = NULL,
  col_name = NULL,
  show_legend = TRUE,
  cons_exists = TRUE
)

Arguments

`vectors`	A matrix of logmap vectors for each tree.
`base_name`	The name of the base tree in the log map.
`other_cons_name`	An optional other consensus tree name.
`gene_names`	An optional list of gene names. If no names are given, numbers will be used to identify trees.
`col`	An optional list of gene attributes to color the points of the scatterplot by.
`col_name`	An optional name for the color attribute
`show_legend`	If true, the color legend is shown, if false it is hidden.
`cons_exists`	True if plot includes a consensus tree, false if not.