Compatibility and advanced helpers • ggPopi

The recommended user-facing interfaces are:

import_gwas() |> plot_manha() or ggpop() + geom_manha()
import_gwas() |> plot_qq() or ggpop() + ggPopi::geom_qq()
plot_admix()
ggpop() + geom_admix()

The package also exports advanced helpers for users who need original-package compatibility or integration with older code.

pophelper compatibility

plot_pophelper_q(import_admix("runs/", type = "admixture"), returnplot = TRUE)
plot_admixture_pophelper(import_admix("runs/", type = "admixture"))

These helpers keep the original pophelper return structure.

Importing pophelper qlists

read_pophelper_q(files = "run1.Q", as_ggpop = TRUE)

When as_ggpop = TRUE, compatibility input is converted to a typed ggpop_admix object so it can enter the same plotting pipeline as native imports.