plot-SCD-ANY-method: General plot function

In wjawaid/bglab: Berthold Gottgens lab scRNA seq

Description

General Plot function

Usage

## S4 method for signature 'SCD,ANY'
plot(x, reduceMethod = c("pca", "diffMap", "tsne",
  "isomap"), dims = c(2, 3), colorBy = "embryoStage", useDims = NULL,
  logContinuous = TRUE, opacity = NULL, ...)

Arguments

x	Single Cell Dataset object
reduceMethod	Dimensionality reduction method to choose. At the moment can be either "pca" or "diffMap"
dims	Number of dimensions
colorBy	Which column of the annotated phenotype data frame to use for colouring points
useDims	Dimensions to be plotted
logContinuous	Take log for continuous variables
opacity	Default is NULL. Set opacity for each point in pData and pass column name as character vector. Values in the range 0:255.
...	Parameters passed to plot3d or plot

Details

Plot function

Value

Returns the requested plot

Author(s)

Wajid Jawaid

wjawaid/bglab documentation built on May 4, 2019, 6:33 a.m.