ClusterDistrPlot.RdPlot the percentage/absolute cell count of each cluster grouped by condition
ClusterDistrPlot(
origin,
cluster,
condition = NULL,
rev = F,
normalize = rev,
percent = T,
plot = T,
flip = T,
reverse_order = T,
stack = T,
cols = "light",
border = "white",
violin = F,
box = T,
width = 0.9,
pt = T,
pt.style = "quasirandom",
pt.size = 1,
pt.alpha = 1,
style = "outline",
ncol = NULL,
nrow = NULL,
stat.method = "wilcox.test",
p.adjust.method = "none",
label = "p.signif",
hide.ns = TRUE,
...
)factor/vector of sample
factor/vector of cluster
factor/vector of condition, should have the same number of unique values as origin. If provided, will create boxplots instead of bar plots, Default: NULL
If TRUE, plot the proportion of sample in each cluster, Default: F
Normalize sample size to 100, Default: rev
If FALSE, plot absolute cell number instead of percentage, Default: T
Generate plot (TRUE) or matrix (FALSE), Default: T
If plot bars horizontally (only used when condition is NULL), Default: T
If TRUE, will reverse the default stacking order (only used when condition is NULL), Default: T
If TRUE, plot stacked bars (only used when condition is NULL), Default: T
Colors to use for plotting. Default: "light"
Border color for bar plots (only used when condition is NULL), Default: "white"
Indicates whether to generate a violin plot (only used when condition is not NULL), Default: FALSE
Indicates whether to depict a box plot (only used when condition is not NULL), Default: TRUE
Width parameter. When condition is NULL, controls bar width; when condition is provided, controls box plot width. Default: 0.9
Indicates if points should be plotted (only used when condition is not NULL), Default: TRUE
Position adjustment. Default choices: "quasirandom", "jitter" (only used when condition is not NULL)
Point size setting (only used when condition is not NULL), Default: 1
Adjusts the transparency of points (only used when condition is not NULL), Default: 1
Plot style: "fill" or "outline" (only used when condition is not NULL). Default: "outline"
Number of columns for multi-panel plots. Default: NULL
Number of rows for multi-panel plots. Default: NULL
Determines if pairwise statistics are added to the plot. Either "wilcox.test" or "t.test", Default: "wilcox.test"
Method for adjusting p-values, Default: "none"
Specifies label type. Options include "p.signif", "p", "p.adj", "p.format", Default: "p.signif"
If TRUE, the 'ns' symbol is concealed when displaying significance levels, Default: TRUE
Additional arguments passed to VlnPlot2
ggplot object or matrix
This function extends ClusterDistrBar to allow grouping by condition, creating boxplots instead of bar plots. When condition is NULL, it behaves exactly like ClusterDistrBar, supporting all its parameters and returning a stacked bar plot. When condition is provided, it transforms the distribution data into a boxplot format using VlnPlot2, with each box representing the distribution of a cluster's proportion across samples within the same condition. This is particularly useful for comparing cluster distributions between experimental conditions.
All styling parameters from VlnPlot2 are supported, including violin/box display options, point styles, colors, and statistical testing. For detailed formatting options, refer to the VlnPlot2 documentation. Common customizations include:
- Changing point display: pt=TRUE/FALSE, pt.size, pt.alpha, pt.style
- Adjusting plot style: style="fill"/"outline", violin=TRUE/FALSE
- Adding statistical tests: stat.method="wilcox.test"/"t.test", p.adjust.method
- Controlling layout: ncol, nrow for multi-cluster displays
# Example with condition
ClusterDistrPlot(
origin = pbmc$sample_id,
cluster = pbmc$cluster,
condition = pbmc$condition
)