RunSoupX: Run SoupX using Seurat clustering
In odavalos/scGrabBag: Useful functions for single-cell projects

RunSoupX

R Documentation

Run SoupX using Seurat clustering

Description

Run SoupX using Seurat clustering

Usage

RunSoupX(
  filtered_cellranger_counts_dir,
  raw_cellranger_counts_h5,
  output_sample_name,
  output_dir = NULL,
  output_type = "rds"
)

Arguments

`filtered_cellranger_counts_dir`	Path to the filtered cellranger counts directory
`raw_cellranger_counts_h5`	Path to the raw cellranger counts h5 file
`output_sample_name`	Name of the output file
`output_type`	Type of output file. Either "rds" or "mtx"

Value

A matrix of corrected counts

Examples

## Not run: 
RunSoupX(filtered_cellranger_counts_dir = "filtered_cellranger_counts_dir",
         raw_cellranger_counts_h5 = "raw_cellranger_counts_h5",
         output_sample_name = "output_sample_name",
         output_type = "rds")

## End(Not run)

odavalos/scGrabBag documentation built on Jan. 15, 2025, 11:45 p.m.