heatmap_plotter: Heatmap Plotter

In compbiomed/BatchQC: Batch Effects Quality Control Software

Heatmap Plotter

Description

This function allows you to plot a heatmap

Usage

heatmap_plotter(se, assay, nfeature, annotation_column, log_option)

Arguments

se	SummarizedExperiment
assay	normalized or corrected assay
nfeature	number of features to display
annotation_column	choose column
log_option	TRUE if data should be logged before plotting (recommended for sequencing counts), FALSE if data should not be logged (for instance, data is already logged)

Value

heatmap plot

Examples

library(scran)
se <- mockSCE()
heatmaps <- BatchQC::heatmap_plotter(se,
                                assay = "counts",
                                nfeature = 15,
                                annotation_column = c("Mutation_Status",
                                "Treatment"), log_option = FALSE)
correlation_heatmap <- heatmaps$correlation_heatmap
correlation_heatmap

heatmap <- heatmaps$topn_heatmap
heatmap

compbiomed/BatchQC documentation built on Nov. 16, 2024, 5:47 a.m.