plot_admixture_labelled: Make stacked-bar plot of ancestry proportions, with...

In andrewparkermorgan/popcorn: File-Format Wrangler for Population-Based Genetic Data

Make stacked-bar plot of ancestry proportions, with population labels

Description

Make stacked-bar plot of ancestry proportions, with population labels

Usage

plot_admixture_labelled(
  Q,
  sort_order = NULL,
  pop_order = NULL,
  cluster_order = NULL,
  label_pops = TRUE,
  label_size = 3,
  opaque_labs = FALSE,
  label_ind = FALSE,
  nudge = 0.05,
  ymax = 1.5,
  ...
)

Arguments

Q	a matrix of admixture proportions, melted or not; must have a column 'pop' with population labels
sort_order	pre-determined sort order for individuals, eg. by cluster membership
pop_order	pre-determined sort order for populations
cluster_order	named vector to map arbitrary ancestry-component labels ('pop1') onto meaningful ones
label_pops	should population labels be drawn?
label_size	text size for population labels
label_ind	should individuals be labelled along x-axis (probaly not, if more than a few samples)
nudge	extra buffer around population labels
ymax	how much extra space to allow for population labels; about 1.5 is probably enough
...	extra arguments, ignored
label	show individual IDs along axis

andrewparkermorgan/popcorn documentation built on July 8, 2023, 12:42 p.m.