Pure ggplot-style admixture plots — plot

`plot_admix2()` and `geom_admix2()` provide the pure ggplot-style ADMIXTURE layout: stacked bars, assignment-based sample ordering, `theme_minimal()`, Brewer `Paired` fills by default, and script-style free facets by K and population group. The original `plot_admix()` and `geom_admix()` remain the pophelper-style interfaces.

Usage

plot_admix2(data, title = NULL, subtitle = NULL, caption = NULL,
  sort = c("assignment", "none", "label"), k = "all", palette = "Paired",
  group = "pop", show_legend = FALSE, show_sample_labels = FALSE,
  base_size = 12, base_family = "", bar_width = 1, strip_angle = 30, ...)

geom_admix2(mapping = NULL, data = NULL, ...,
  sort = c("assignment", "none", "label"), k = "all", palette = "Paired",
  group = "pop", bar_width = 1, show.legend = FALSE,
  show_sample_labels = FALSE, base_size = 12, base_family = "",
  strip_angle = 30, na.rm = FALSE, inherit.aes = TRUE)

Arguments

data: A `ggpop_admix` object, or optional layer data for `geom_admix2()`.
title, subtitle, caption: Plot text.
sort: Sample ordering: `assignment` orders by most likely cluster and descending assignment probability, `none` keeps input order, and `label` orders sample labels.
k: K selection: `"all"`, a single integer, or an integer vector.
palette: A single RColorBrewer palette name such as `"Paired"`, or a manual cluster colour vector.
group: Population group column used for script-style free facets. Set to `NULL` to draw without group facets.
show_legend, show.legend: Legend display switches.
show_sample_labels: Display sample labels on the x axis.
base_size, base_family: Theme font settings.
bar_width: Admixture bar width.
strip_angle: Facet strip text angle.
mapping: Ignored. Admixture layers define their own required aesthetics.
...: Additional arguments passed to `ggplot2::geom_col()`.
na.rm: Remove missing values.
inherit.aes: Inherit plot aesthetics.