boxplot_group_interaction: Create a boxplot of the joint mean score for a specific...

In arc85/celltalker: Analysis of cell-cell communication from single-cell RNAseq data

Create a boxplot of the joint mean score for a specific ligand receptor interaction between two groups of samples

Description

Create a boxplot of the joint mean score for a specific ligand receptor interaction between two groups of samples

Usage

boxplot_group_interaction(
  seurat_object,
  interaction_stats,
  sample_replicates,
  sample_groups,
  metadata_grouping,
  ligand,
  receptor,
  cell_type1,
  cell_type2
)

Arguments

seurat_object	Seurat object containing expression levels across all cells and sample types
interaction_stats	Tibble from celltalk function, usually filtered to the top significant ligand and receptor interactions of interest
sample_replicates	Name of the meta.data column in a Seurat object that has the samples of the individual replicate samples
sample_groups	Name of the meta.data column in a Seurat object that has the name of the sample group
metadata_grouping	Name of the meta.data column in a Seurat object that has the name of the groups of cells to evaluate (e.g. "cell_types" containing previously identified cell types)
ligand	Name of the ligand in the ligand/receptor pair of interest
receptor	Name of the receptor in the ligand/receptor pair of interest
cell_type1	Name of the cell type expressing the ligand in the ligand/ receptor pair of interest
cell_type2	Name of the cell type expressing the receptor in the ligand/ receptor pair of interest

Value

A ggplot boxplot of the joint mean for a ligand/receptor interaction in each sample group.

arc85/celltalker documentation built on July 2, 2023, 2:07 p.m.