addTwoDimRed: addTwoDimRed

In swaruplabUCI/ArchRtoSignac: What the Package Does (One Line, Title Case)

addTwoDimRed

Description

This function adds dimension reduction ('Harmony' and/or 'IterativeLSI') and UMAP to a SeuratObject

Usage

addTwoDimRed(
  ArchRProject,
  SeuratObject,
  addUMAPs = "UMAP",
  reducedDims1 = NULL,
  reducedDims2 = NULL
)

Arguments

ArchRProject	An ArchRProject
SeuratObject	A Seurat object
addUMAPs	add UMAPs by default
reducedDims1	'Harmony'or 'IterativeLSI' or 'IterativeLSI2', the dimension reduction to be transfered from ArchRProject to Signac SeuratObject (default is 'IterativeLSI')
reducedDims2	'Harmony'or 'IterativeLSI' or 'IterativeLSI2', the dimension reduction to be transfered from ArchRProject to Signac SeuratObject (default is 'IterativeLSI')

Examples

seurat_atac <- addTwoDimRed(ArchRProject = proj, SeuratObject = seurat_atac, reducedDims1 = 'IterativeLSI', reducedDims2= 'Harmony')

swaruplabUCI/ArchRtoSignac documentation built on Aug. 23, 2024, 2:03 p.m.