A 'ggplot2' Extension for Consistent Axis Alignment

Documentation for package ‘ggalign’ version 0.0.5

Help Pages

-- A --

active	Plot Adding Context Settings
align_dendro	Reorder or Group observations based on hierarchical clustering
align_gg	Create ggplot object
align_group	Group and align observations based on a group vector
align_kmeans	Split observations by k-means clustering groups.
align_order	Order observations based on weights
align_plots	Arrange multiple plots into a grid
align_reorder	Reorders layout observations based on specific statistics.
anno_bottom	Determine the Active Context of Quad-Layout
anno_left	Determine the Active Context of Quad-Layout
anno_right	Determine the Active Context of Quad-Layout
anno_top	Determine the Active Context of Quad-Layout
area	Define the plotting areas in 'align_plots'

-- D --

Dengrogram x and y coordinates

-- F --

fortify_data_frame	Build a data frame
fortify_data_frame.character	Build a data frame
fortify_data_frame.default	Build a data frame
fortify_data_frame.matrix	Build a data frame
fortify_data_frame.numeric	Build a data frame
fortify_matrix	Build a Matrix
fortify_matrix.default	Build a Matrix
fortify_matrix.MAF	Build a Matrix
fortify_stack	Build data for the stack layout
free_align	Free from alignment
free_border	Free from alignment
free_gg	Add ggplot to layout
free_guide	Free from alignment
free_lab	Free from alignment
free_space	Free from alignment
free_vp	Free from alignment

-- G --

geom_pie	Pie charts
ggalign	Create ggplot object
ggalignGrob	Generate a plot grob.
ggalign_attr	Get data from the 'ggalign' attribute
ggalign_stat	Get the statistics from the layout
ggalign_stat.QuadLayout	Get the statistics from the layout
ggalign_stat.StackLayout	Get the statistics from the layout
ggfree	Add ggplot to layout
ggheatmap	Arrange Plots in a Heatmap
ggoncoplot	Create 'OncoPrint' Visualizations from Genetic Alteration Data
ggoncoplot.default	Create 'OncoPrint' Visualizations from Genetic Alteration Data
ggside	Arrange Plots in the Quad-Side of a main plot
ggstack	Put plots horizontally or vertically
ggwrap	Wrap Arbitrary Graphics to ggplot

-- H --

hclust2	Generate Tree Structures with Hierarchical Clustering
heatmap_layout	Arrange Plots in a Heatmap
hmanno	Determine the Active Context of Quad-Layout

-- I --

inset	Create a ggplot inset
is_ggheatmap	Reports whether 'x' is layout object
is_heatmap_layout	Reports whether 'x' is layout object
is_layout	Reports whether 'x' is layout object
is_quad_layout	Reports whether 'x' is layout object
is_stack_layout	Reports whether 'x' is layout object

-- L --

layer_order	Change the layer adding order
layout-operator	Layout operator
layout_annotation	Modify components of the layout
layout_design	Define the grid to compose plots in
layout_title	Annotate the whole layout

-- O --

Ops-method	Layout operator
order2	Ordering Permutation
order2.dendrogram	Ordering Permutation
order2.hclust	Ordering Permutation
order2.ser_permutation	Ordering Permutation
order2.ser_permutation_vector	Ordering Permutation

-- P --

patch.alignpatches	Convert Object into a Grob
patch.formula	Convert Object into a Grob
patch.function	Convert Object into a Grob
patch.ggplot	Convert Object into a Grob
patch.gList	Convert Object into a Grob
patch.grob	Convert Object into a Grob
patch.Heatmap	Convert Object into a Grob
patch.HeatmapAnnotation	Convert Object into a Grob
patch.HeatmapList	Convert Object into a Grob
patch.patch	Convert Object into a Grob
patch.patchwork	Convert Object into a Grob
patch.patch_ggplot	Convert Object into a Grob
patch.pheatmap	Convert Object into a Grob
patch.recordedplot	Convert Object into a Grob
patch.trellis	Convert Object into a Grob
patch_titles	Add patch titles to plot borders
plot_align	Align Specifications in the Layout
plot_data	Plot data Specifications
plot_theme	Plot default theme

-- Q --

quad_active	Determine the Active Context of Quad-Layout
quad_alignb	Arrange Plots in the Quad-Side of a main plot
quad_alignh	Arrange Plots in the Quad-Side of a main plot
quad_alignv	Arrange Plots in the Quad-Side of a main plot
quad_anno	Determine the Active Context of Quad-Layout
quad_free	Arrange Plots in the Quad-Side of a main plot
quad_init	Initialize Quad-Layout Annotation
quad_layout	Arrange Plots in the Quad-Side of a main plot
quad_switch	Determine the Active Context of Quad-Layout

-- R --

Read Example Data

-- S --

stack_active	Determine the active context of stack layout
stack_align	Arrange Plots Horizontally or Vertically
stack_alignh	Arrange Plots Horizontally or Vertically
stack_alignv	Arrange Plots Horizontally or Vertically
stack_free	Arrange Plots Horizontally or Vertically
stack_freeh	Arrange Plots Horizontally or Vertically
stack_freev	Arrange Plots Horizontally or Vertically
stack_layout	Put plots horizontally or vertically
stack_switch	Determine the active context of stack layout

-- T --

theme_ggalign	Theme for Layout Plots
theme_no_axes	Remove axis elements

-- W --

Modify Context for the '-' Operator in 'quad_layout()'

-- misc --