getClusterInputData: Get data to use as input clustering algorithms
In mmkhan19/singleCellTK: Interactive Analysis of Single Cell RNA-Seq Data

getClusterInputData

R Documentation

Get data to use as input clustering algorithms

Description

Get data to use as input clustering algorithms

Usage

getClusterInputData(
  inSCE,
  inputData,
  useAssay = "logcounts",
  reducedDimName = NULL
)

Arguments

`inSCE`	Input SCtkExperiment object. Required
`inputData`	A string ("Raw Data", "PCA Components", "tSNE Components", "UMAP Components")
`useAssay`	Indicate which assay to use for PCA. Default is "logcounts"
`reducedDimName`	If clustering on PCA, t-SNE or UMAP data, dimension name. The toolkit will store data with the pattern <ASSAY>_<ALGORITHM>.

Value

Cluster input data

Examples

data("mouseBrainSubsetSCE")
getClusterInputData(mouseBrainSubsetSCE, "PCA Components",
                    useAssay = "logcounts", reducedDimName = "PCA_logcounts")

mmkhan19/singleCellTK documentation built on March 22, 2022, 7:43 a.m.