CompareCellProp: Compare the cell proportion

In CostaLab/scMEGA: Single-cell Multiomic Enhancer-based Gene Regulatory Network Inference

Compare the cell proportion

Description

Compare the cell proportion

Usage

CompareCellProp(
  object,
  group.by = NULL,
  prop.in = NULL,
  sample.annotation = NULL,
  cols = NULL,
  comparisons = NULL,
  method.test = "wilcox.test"
)

Arguments

object	Seurat object
group.by	Name of one metadata column to group the cells, usually this refers to the clustering results.
prop.in	Name of one metadata column to compute the cell proportion, usually this refers to the sample identify
sample.annotation	Name of one metadata column to group the samples for comparison
cols	Specific colors for plotting
comparisons	A list of length-2 vectors used to compare the proportion. This parameter is passed to the function stat_compare_means.
method.test	Name of method for statistical test. Default: "wilcox.test"

Value

A ggplot object

Examples

## Not run: 
p <- CompareCellProp(
   object = coembed,
   group.by = "RNA_snn_res.0.2",
   prop.in = "patient_region_id",
   sample.annotation = "patient_group",
    comparisons = list(c("myogenic", "ischemic"),
                       c("ischemic", "fibrotic"),
                       c("myogenic", "fibrotic"))
)

## End(Not run)

CostaLab/scMEGA documentation built on Sept. 25, 2024, 6:11 a.m.