BatchEffect_Visualise: BatchEffect_Visualise function

In GregoireCoppens/LICMEpigenetics: Processing of Epigenetic data

BatchEffect_Visualise function

Description

Function to visualise batch effect using point plots and heatmaps. This function combines the MergeMetadata, BatchEffect_PointPlot and BatchEffect_PCAHeatmap function.

Usage

BatchEffect_Visualise(
  x,
  df,
  by,
  batch,
  Cat_vars = c(),
  Cont_vars = c(),
  n = 6,
  xlim = c(-1000, 2500),
  ylim = c(-1000, 1000)
)

Arguments

x	Epigenetic set object.
df	Metadata
by	Name of the column to merge existing data with
batch	The non-biological factor that we want to investigate for batch effect.
Cat_vars	Categorical variables for the heatmap
Cont_vars	Continues variables for the heatmap
n	number of samples per plot
xlim	range of the x-axis
ylim	range of the y-axis

Value

Updated Epigenetic set object.

GregoireCoppens/LICMEpigenetics documentation built on April 24, 2023, 10:02 a.m.