subsetSeurat: Subset Seurat Object

In NMikolajewicz/scMiko: scRNAseq analysis functions. Developed using Seurat framework.

Subset Seurat Object

Description

Subset Seurat object according to specified meta data field. Only specified meta data entries are retained, while remaining of data is omitted.

Usage

subsetSeurat(object, subset.df)

Arguments

object	Seurat object
subset.df	Data.frame specifying which field (subset.df$field) to subset on, and which field entries to retain (subset.df$subgroups).

Value

Seurat object

Examples

# define subset parameters
subset.df <- data.frame(field = "seurat_clusters", subgroups = c(0,2,3,5,6,7,9,15)) # tumor population from Renca 4000ds T12 sample

# subset data
so <- subsetSeurat(so, subset.df)

NMikolajewicz/scMiko documentation built on June 28, 2023, 1:41 p.m.