inSilico.TGammaDelta: Identification of gamma delta T cells (simple...

In Japrin/scPip: pipeline for scRNA-seq data analysis

Identification of gamma delta T cells (simple average-threshold method)

Description

Identification of gamma delta T cells (simple average-threshold method)

Usage

inSilico.TGammaDelta(
  obj,
  out.prefix = NULL,
  assay.name = "norm_exprs",
  vis.v = c(0.25, 0.5),
  Th.CD3 = 0.25,
  Th.DC = 0.25,
  Th.GC1 = 0.25,
  Th.GC2 = 0.25
)

Arguments

obj	object of SingleCellExperiment
out.prefix	character; output prefix. (default: NULL)
assay.name	character vector; which assay to use. (default: "norm_exprs").
vis.v	double vector; for vertical lines in visulization. (default: c(0.25,0.5)).
Th.CD3	double; threshold for T cell signature. (default: 0.25)
Th.DC	double; threshold for delta receptor constant chain. (default: 0.25)
Th.GC1	double; threshold for gamma receptor constant chain 1. (default: 0.25)
Th.GC2	double; threshold for gamma receptor constant chain 2. (default: 0.25)

Value

a SingleCellExperiment object

Japrin/scPip documentation built on April 14, 2025, 10:32 a.m.