makeGOSeurat: create a seurat object with GO terms

In scGOclust: Measuring Cell Type Similarity with Gene Ontology in Single-Cell RNA-Seq

create a seurat object with GO terms

Description

create a seurat object with GO terms

Usage

makeGOSeurat(ensembl_to_GO, seurat_obj, feature_type = "ensembl_gene_id")

Arguments

ensembl_to_GO	ensembl_to_go mapping table from function ensemblToGo
seurat_obj	count matrix with genes to cells
feature_type	feature type of count matrix, choose from ensembl_gene_id, external_gene_name, default ensembl_gene_id

Value

a seurat object with GO terms as features

Examples

library(scGOclust)
library(httr)
httr::set_config(httr::config(ssl_verifypeer = FALSE))
data(mmu_tbl)
data(mmu_subset)
makeGOSeurat(ensembl_to_GO = mmu_tbl,
 seurat_obj = mmu_subset,
 feature_type = "external_gene_name")

scGOclust documentation built on May 29, 2024, 8:59 a.m.