plotDimRed {singleCellTK} | R Documentation

## Plot results either on already run results of reduced dimensions data.

### Description

Plot results either on already run results of reduced dimensions data.

### Usage

    plotDimRed(inSCE, colorBy = "No Color", shape = "No Shape",
      reducedDimName = NULL, useAssay = "logcounts", comp1 = NULL,
      comp2 = NULL, pcX = NULL, pcY = NULL)

### Arguments

`inSCE` | Input SCtkExperiment object with saved dimension reduction components or a variable with saved results. Required
`colorBy` | color by a condition(any column of the annotation data).
`shape` | add shapes to each condition.
`reducedDimName` | saved dimension reduction name in the SCtkExperiment object. Required.
`useAssay` | Indicate which assay to use. The default is "logcounts"
`comp1` | label for x-axis
`comp2` | label for y-axis
`pcX` | PCA component to be used for plotting(if applicable). Default is first PCA component for PCA data and NULL otherwise.
`pcY` | PCA component to be used for plotting(if applicable). Default is second PCA component for PCA data and NULL otherwise.

### Value

a ggplot of the reduced dimensions.

### Examples

    plotDimRed(inSCE = mouseBrainSubsetSCE, colorBy = "No Color", shape = "No Shape",
               reducedDimName = "TSNE_counts", useAssay = "counts",
               comp1 = "tSNE1", comp2 = "tSNE2")

[Package singleCellTK version 1.6.0 Index]