seuratRunTSNE: seuratRunTSNE Computes tSNE from the given sce object and...

In singleCellTK: Comprehensive and Interactive Analysis of Single Cell RNA-Seq Data

Description

seuratRunTSNE Computes tSNE from the given sce object and stores the tSNE computations back into the sce object

Usage

seuratRunTSNE(
  inSCE,
  useReduction = c("pca", "ica"),
  reducedDimName = "seuratTSNE",
  dims = 10,
  perplexity = 30
)

Arguments

inSCE	(sce) object on which to compute the tSNE
useReduction	selected reduction algorithm to use for computing tSNE. One of "pca" or "ica". Default "pca".
reducedDimName	Name of new reducedDims object containing Seurat tSNE Default seuratTSNE.
dims	Number of reduction components to use for tSNE computation. Default 10.
perplexity	Adjust the preplexity tuneable parameter for the underlying tSNE call. Default 30.

Value

Updated sce object with tSNE computations stored

singleCellTK documentation built on Nov. 8, 2020, 5:21 p.m.