Package index • ggalign

Layout Class

A Layout object defines how to place the plots.

heatmap_layout() stable: Arrange Plots in a Heatmap

stack_layout() experimental: Put plots horizontally or vertically

quad_layout() experimental: Arrange Plots in the Quad-Side of a main plot

quad_free() quad_alignh() quad_alignv() quad_alignb() experimental: Arrange Plots in the Quad-Side of a main plot

stack_align() stack_alignv() stack_alignh() stack_free() stack_freev() stack_freeh() experimental: Arrange Plots Horizontally or Vertically

ggoncoplot() experimental: Create OncoPrint Visualizations from Genetic Alteration Data

Layout Building

All plots begin with a call to ggheatmap()/quad_layout() or ggstack(), supplying default data. You then reorder the observations, or split the observations into groups, and add plots, layers, scales, coords with +. Use quad_switch()/hmanno() or stack_switch() to switch the active context. To save a plot to disk, use ggsave().

Ops(<QuadLayout>,<ANY>) Ops(<StackLayout>,<ANY>) experimental: Layout operator

quad_switch() hmanno() stable: Determine the Active Context of Quad-Layout

quad_active() quad_anno() anno_top() anno_left() anno_bottom() anno_right() stable: Determine the Active Context of Quad-Layout

quad_init() experimental: Initialize Quad-Layout Annotation

with_quad() experimental: Modify Context for the - Operator in quad_layout()

stack_switch() stack_active() stable: Determine the active context of stack layout

active() experimental: Plot Adding Context Settings

theme_ggalign(): Theme for Layout Plots

Layout Customization

Fine-tune the arrangement of plots by reordering or splitting axes into separate panels. These functions allow for more detailed customization of plot layouts.

align_dendro() stable: Reorder or Group observations based on hierarchical clustering

align_group() stable: Group and align observations based on a group vector

align_kmeans() stable: Split observations by k-means clustering groups.

align_order() stable: Order observations based on weights

align_reorder(): Reorders layout observations based on specific statistics.

Layout Plot

This section covers essential functions to add individual plots to the layout, ensuring they align and interact correctly within the defined structure.

align_gg() stable: Create ggplot object

free_gg() experimental: Add ggplot to layout

Plot options

This section covers essential functions to add individual plots to the layout, ensuring they align and interact correctly within the defined structure.

plot_align() experimental: Align Specifications in the Layout

plot_data() experimental: Plot data Specifications

plot_theme() experimental: Plot default theme

Plot composer

This section outlines essential functions for composing plots into a grid, intended for internal use. The core code is derived from the patchwork package, with the hope of eventually integrating and merging these functions into the patchwork project.

align_plots(): Arrange multiple plots into a grid

patch_titles(): Add patch titles to plot borders

free_align() free_border() free_guide() free_lab() free_space() free_vp(): Free from alignment

area(): Define the plotting areas in align_plots

inset(): Create a ggplot inset

ggwrap(): Wrap Arbitrary Graphics to ggplot

layout_design(): Define the grid to compose plots in

layout_title(): Annotate the whole layout

layout_annotation(): Modify components of the layout

Extending Plot Composer

Extending capabilities to align graphics with align_plots().

alignpatch(): Prepare plots to be aligned with align_plots

patch(): Convert Object into a Grob

helpers

A handful of helpers

geom_pie(): Pie charts

layer_order() experimental: Change the layer adding order

theme_no_axes(): Remove axis elements

ggalignGrob(): Generate a plot grob.

ggalign_attr(): Get data from the ggalign attribute

ggalign_stat(): Get the statistics from the layout

fortify_data_frame(): Build a data frame

fortify_matrix(): Build a Matrix

fortify_stack(): Build data for the stack layout

align() experimental: Create a New align Object

hclust2(): Generate Tree Structures with Hierarchical Clustering

order2(): Ordering Permutation

dendrogram_data(): Dengrogram x and y coordinates

is_layout() is_quad_layout() is_stack_layout() is_heatmap_layout() is_ggheatmap(): Reports whether x is layout object

read_example(): Read Example Data