scMsigdbScoring: scMsigdbScoring

In ncrna/Yeskit: Yet Another Single-Cell Analysis Toolkit (Yeskit)

scMsigdbScoring

Description

MSigdb signature scoring for single-cells

Usage

scMsigdbScoring(
  object = NULL,
  species = "human",
  category = NULL,
  genesets = NULL
)

Arguments

object	Seurat object
species	Species name. Such as "human" or "mouse"
category	String of MSigDB category to use, default category='H' stands for 'hallmark gene sets'
genesets	Vector of genesets under the specific category of MSIGDB, such as "APOPTOSIS". Default genesets=NULL, which means all genesets under the specified category will be used

Value

Seurat object

Examples

data("H3N2_small")
x <- scMsigdbScoring(object = H3N2_small, 
  species = "human", category = "H",
  genesets = c("HALLMARK_INFLAMMATORY_RESPONSE")
)
head(x)

ncrna/Yeskit documentation built on Oct. 27, 2023, 2:13 a.m.