snapGmat2Seurat: Convert snap object to Seurat by gmat

In beyondpie/pureRUtils: Commonly used R functions with pure R codes

Convert snap object to Seurat by gmat

Description

Convert snap object to Seurat by gmat

Usage

snapGmat2Seurat(
  snap,
  eigDims = 1:50,
  assay = "GeneScore",
  pcaPrefix = "SnapATAC_",
  nameDelim = "-",
  useSnapATACEmbed = TRUE
)

Arguments

snap	snap object defined in SnapATAC package snap@gmat must be not empty; snap@smat@dmat should not be empty
eigDims	vector, used for choosing PCA components, default 1:50
assay	characters, name used in Seurat object
pcaPrefix	characters, default "SnapATAC_"
nameDelim	characters, default "-"
useSnapATACEmbed	bool, use SnapATAC embedding as pca embeding in Seurat, default TRUE.

Value

Seurat object

beyondpie/pureRUtils documentation built on Jan. 10, 2023, 3:22 a.m.