plot_expression: Plot Expression

In zolotarovgl/digiworm.plot: Useful plotting functions for Seurat objects

Description

This function plots the expression of the feature across cells. It's analogous to the Seurat::FeaturePlot() but it changes the transparency of negative cells so all positive ones are visible.

Usage

plot_expression(seurat_object, marker, expr.threshold = 0,
  alpha_neg = 0.1, reduction = "umap")

Arguments

seurat_object	the object to retrieve the data from.
marker	a gene to plot.
expr.threshold	the threshold of expression below which cells are plotted as negative.
alpha_neg	transparency value for negative points.
reduction	dimensionality reduction, could be c('pca','tsne','umap')

Examples

cluster_data()

zolotarovgl/digiworm.plot documentation built on May 6, 2019, 8:31 p.m.