Package index • ggpubr

Plot One Variable - X, Continuous

Visualize distributions.

ggdensity(): Density plot
stat_overlay_normal_density(): Overlay Normal Density Plot
gghistogram(): Histogram plot
ggecdf(): Empirical cumulative density function
ggqqplot(): QQ Plots

Plot Two Variables - X and Y, Discrete X and Continuous Y

Visualize data distributions by groups.

ggboxplot(): Box plot
ggviolin(): Violin plot
ggdotplot(): Dot plot
ggstripchart(): Stripcharts
ggbarplot(): Bar plot
ggline(): Line plot
ggerrorplot(): Visualizing Error
ggpie(): Pie chart
ggdonutchart(): Donut chart
ggdotchart() theme_cleveland(): Cleveland's Dot Plots
ggsummarytable() ggsummarystats() print(<ggsummarystats>) print(<ggsummarystats_list>): GGPLOT with Summary Stats Table Under the Plot

Plot Two Continuous Variables

Scatter plots

ggscatter(): Scatter plot
stat_cor(): Add Correlation Coefficients with P-values to a Scatter Plot
stat_regline_equation(): Add Regression Line Equation and R-Square to a GGPLOT.
stat_stars(): Add Stars to a Scatter Plot
ggscatterhist() print(<ggscatterhist>): Scatter Plot with Marginal Histograms

Plot Paired Data

Paired data

ggpaired(): Plot Paired Data

Comparing Means and Adding p-values

compare_means(): Comparison of Means
stat_compare_means(): Add Mean Comparison P-values to a ggplot
stat_pvalue_manual(): Add Manually P-values to a ggplot
stat_anova_test(): Add Anova Test P-values to a GGPlot
stat_kruskal_test(): Add Kruskal-Wallis Test P-values to a GGPlot
stat_welch_anova_test(): Add Welch One-Way ANOVA Test P-values to a GGPlot
stat_friedman_test(): Add Friedman Test P-values to a GGPlot
stat_pwc() geom_pwc(): Add Pairwise Comparisons P-values to a GGPlot
stat_bracket() geom_bracket(): Add Brackets with Labels to a GGPlot
ggadjust_pvalue(): Adjust p-values Displayed on a GGPlot

Plot Tables and Paragraphs

ggtexttable() ttheme() colnames_style() rownames_style() tbody_style() table_cell_font() table_cell_bg() tab_cell_crossout() tab_ncol() tab_nrow() tab_add_hline() tab_add_vline() tab_add_border() tbody_add_border() thead_add_border() tab_add_title() tab_add_footnote(): Draw a Textual Table
ggparagraph() drawDetails(<splitText>): Draw a Paragraph of Text
text_grob(): Create a Text Graphical object

Contingency table

ggballoonplot(): Ballon plot

Genomics

Plotting data obtained from genomic data analyses.

ggmaplot(): MA-plot from means and log fold changes

Themes

theme_pubr() theme_pubclean() labs_pubr() theme_classic2() clean_theme() clean_table_theme(): Publication ready theme
theme_transparent(): Create a ggplot with Transparent Background

Graphical Parameters

Change graphical parameters such as, titles, legend, colors, axis limits, scale transformation (log, sqrt), axis ticks and plot orientation (vertical, horizontal).

ggpar(): Graphical parameters
show_line_types(): Line types available in R
show_point_shapes(): Point shapes available in R
font(): Change the Appearance of Titles and Axis Labels
rotate(): Rotate a ggplot Horizontally
rotate_x_text() rotate_y_text(): Rotate Axes Text
set_palette() change_palette() color_palette() fill_palette(): Set Color Palette
gradient_color() gradient_fill(): Set Gradient Color
border(): Set ggplot Panel Border Line
bgcolor(): Change ggplot Panel Background Color
rremove(): Remove a ggplot Component
grids(): Add Grids to a ggplot
xscale() yscale(): Change Axis Scale: log2, log10 and more
get_breaks(): Easy Break Creation for Numeric Axes
get_legend(): Extract Legends from a ggplot object

Arrange and Export Multiple ggplots

ggarrange(): Arrange Multiple ggplots
ggexport(): Export ggplots
annotate_figure(): Annotate Arranged Figure
background_image(): Add Background Image to ggplot2

Make Programming Easy with GGPlot2

geom_exec(): Execute ggplot2 functions
create_aes(): Create Aes Mapping from a List

Coordinates

as_npc() as_npcx() as_npcy(): Convert Character Coordinates into Normalized Parent Coordinates (NPC)
npc_to_data_coord(): Convert NPC to Data Coordinates
get_coord(): Checks and Returns Data Coordinates from Multiple Input Options

Helpers

facet(): Facet a ggplot into Multiple Panels
add_summary() mean_se_() mean_sd() mean_ci() mean_range() median_iqr() median_hilow_() median_q1q3() median_mad() median_range(): Add Summary Statistics onto a ggplot.
ggadd(): Add Summary Statistics or a Geom onto a ggplot
get_palette(): Generate Color Palettes
as_ggplot(): Storing grid.arrange() arrangeGrob() and plots
ggtext(): Text
ggpubr_options(): Global Options for GGPubr
ggpubr_args: ggpubr General Arguments Description

Data

diff_express: Differential gene expression analysis results
gene_citation: Gene Citation Index
gene_expression: Gene Expression Data

Others

desc_statby(): Descriptive statistics by groups
stat_chull(): Plot convex hull of a set of points
stat_conf_ellipse(): Plot confidence ellipses.
stat_mean(): Draw group mean points
stat_central_tendency(): Add Central Tendency Measures to a GGPLot
reexports mutate group_by get_summary_stats: Objects exported from other packages