plotClusterExprs {CATALYST} | R Documentation

## Plot expression distributions by cluster

### Description

Plots smoothed densities of arcsinh-transformed marker intensities by cluster.

### Usage

    plotClusterExprs(x, k = "meta20", features = NULL)

### Arguments

`x` | a `SingleCellExperiment`.
`k` | character string. Specifies the clustering to use.
`features` | character string specifying which features to include. Defaults to NULL (= all features). Alternatively, if the `colData(x)$marker_class` column is specified, can be one of "type", "state", or "none".

### Value

a `ggplot` object.

### Author(s)

Helena Lucia Crowell helena.crowell@uzh.ch

### References

Nowicka M, Krieg C, Weber LM et al. CyTOF workflow: Differential discovery in high-throughput high-dimensional cytometry datasets. F1000Research 2017, 6:748 (doi: 10.12688/f1000research.11622.1)

### Examples

    # construct SCE & run clustering
    data(PBMC_fs, PBMC_panel, PBMC_md)
    sce <- prepData(PBMC_fs, PBMC_panel, PBMC_md)
    sce <- cluster(sce)

    plotClusterExprs(sce)

[Package CATALYST version 1.10.3 Index]