wrapperROGUE: Caculate ROGUE values for Cell Cluster and conclude their...

In RyanYip-Kat/yipCat: Some function like ArchR style in Seurat Object

Description

Caculate ROGUE values for Cell Cluster and conclude their their heterogeneity.

Usage

wrapperROGUE(
  object = NULL,
  slot = "counts",
  useFeatures = NULL,
  draw = TRUE,
  ext = "pdf",
  k = NULL,
  auto = TRUE,
  platform = "UMI",
  labelCol = "label_fine",
  sampleCol = "Sample",
  outdir = NULL
)

Arguments

object	Seurat or SingleCellExperiment or SummarizedExperiment Object
slot	which slot data use,default counts
useFeatures	features use to caculate rogue.value
draw	whether draw plot
ext	if draw,which figure style to save,default pdf
k	value for caculate rogue
auto	when k is NULL,will auto caculate k value
platform	which platform,"UMI" or "full-length"
labelCol	which column in metadata as labels(celltype)
sampleCol	which column in metadata as sample
outdir	path to save figures

Value

return as list of ent.res and rogue.res

RyanYip-Kat/yipCat documentation built on Dec. 18, 2021, 11:55 a.m.