Create_10X_H5: Create H5 from 10X Outputs

In samuel-marsh/scCustomize: Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing

Create H5 from 10X Outputs

Description

Creates HDF5 formatted output analogous to the outputs created by Cell Ranger and can be read into Seurat, LIGER, or SCE class object. Requires DropletUtils package from Bioconductor.

Usage

Create_10X_H5(
  raw_data_file_path,
  source_type = "10X",
  save_file_path,
  save_name
)

Arguments

raw_data_file_path	file path to raw data file(s).
source_type	type of source data (Default is "10X"). Alternatively can provide "Matrix" or "data.frame".
save_file_path	file path to directory to save file.
save_name	name prefix for output H5 file.

Value

A HDF5 format file that will be recognized as 10X Cell Ranger formatted file by Seurat or LIGER.

Examples

## Not run: 
Create_10X_H5(raw_data_file_path = "file_path", save_file_path = "file_path2", save_name = "NAME")

## End(Not run)

samuel-marsh/scCustomize documentation built on Dec. 20, 2024, 7:41 a.m.