ggalign (version 1.2.0)

quad_scope: Modify operated Context in quad_layout()

Description

The quad_scope() function controls how plot elements (e.g., themes, scales, or other ggplot objects) are applied within a ggheatmap() or quad_layout() context. It allows you to direct modifications to specific annotation positions or the main plot without altering the currently active layout or nesting state.

Usage

quad_scope(object = NULL, position = waiver())

Value

The original object with an added attribute that sets the specified context.

Arguments

object

An object which can be added to the ggplot.

position

A string or character vector specifying one or more positions ("t", "l", "b", "r", and "i") indicating where x should be applied. Use 'i' to refer to the quad body (i.e., the main plot). If NULL, the active annotation context is cleared, behaving as if no annotation is active. See the Details section for more information.

Details

Default behavior when adding objects wrapped with quad_scope():

• When no annotation stack is active: Modifications are applied normally without needing quad_scope().

• When an annotation stack is active: quad_scope() ensures the object is also applied to:

  • The active annotation stack

  • The main plot

When position is manually specified:

• If NULL, it behaves as if no annotation is active

• If a string, the object is applied only to the specified positions (to include the main plot, explicitly add "i" to position)

Examples

set.seed(123)
small_mat <- matrix(rnorm(56), nrow = 7)

# By wrapping object with `quad_scope()`, the `+` operator will apply the
# object not only to the active plot in the annotation stack, but also to
# the main plot unless specified by `main` argument otherwise.
ggheatmap(small_mat) +
    # initialize the left annotation
    anno_left(size = 0.2) +
    align_dendro() +
    # apply the object not only to the active plot in the annotation stack,
    # but also to the main plot
    quad_scope(theme(plot.background = element_rect(fill = "red")))

# When the `position` argument is manually set, the
# we must explicitly include `"i"` in `position` to apply it to the main plot
ggheatmap(small_mat) +
    anno_left(size = 0.2) +
    align_dendro(aes(color = branch), k = 3L) +
    anno_top(size = 0.2) +
    align_dendro(aes(color = branch), k = 3L) +
    anno_bottom(size = 0.2) +
    align_dendro(aes(color = branch), k = 3L) -
    # Modify the background of all plots in the left and top annotation
    quad_scope(theme(plot.background = element_rect(fill = "red")), "tl")