PlotClusterComp: Plot cluster compositions

In yanwu2014/perturbLM: A lightweight R package that uses linear models to analyze the effects of chemical/genetic perturbations, conditions, and disease states on single gene expression.

Plot cluster compositions

Description

Plot cluster compositions

Usage

PlotClusterComp(
  group.list,
  clusters,
  samples = NULL,
  stabilize.var = TRUE,
  ctrl.group = NULL,
  groups.plot = NULL,
  clusters.plot = NULL,
  pt.size = 0.75
)

Arguments

group.list	Perturbation dictionary (in list format)
clusters	Cluster annotations
samples	Samples (i.e. mice, patients, biological replicates, default: NULL)
stabilize.var	Apply variance stabilizing transformation (default: TRUE)
ctrl.group	Control perturbation to compute logFC against (for paired samples only, default: NULL)
groups.plot	Subset of perturbations to plot (default: NULL)
clusters.plot	Subset of clusters to plot (default: NULL)
pt.size	Point size (set to zero to hide points)

Value

Boxplot of cluster compositions

yanwu2014/perturbLM documentation built on Aug. 24, 2023, 2:28 p.m.