add_to_seurat: add_to_seurat()

In broadinstitute/inferCNV: Infer Copy Number Variation from Single-Cell RNA-Seq Data

add_to_seurat()

Description

Add meta.data about CNAs to a Seurat object from an infercnv_obj

Usage

add_to_seurat(
  seurat_obj = NULL,
  assay_name = "RNA",
  infercnv_output_path,
  top_n = 10,
  bp_tolerance = 2e+06,
  column_prefix = NULL
)

Arguments

seurat_obj	Seurat object to add meta.data to (default: NULL)
assay_name	Name of the assay in the Seurat object if provided. (default: "RNA")
infercnv_output_path	Path to the output folder of the infercnv run to use
top_n	How many of the largest CNA (in number of genes) to get.
bp_tolerance	How many bp of tolerance to have around feature start/end positions for top_n largest CNVs.
column_prefix	String to add as a prefix to the Seurat metadata columns. Only applied to the seurat_obj, if supplied. Default is NULL

Value

seurat_obj

broadinstitute/inferCNV documentation built on Nov. 21, 2024, 12:06 a.m.