read10xMatrix {pagoda2}

This function reads a matrix generated by the 10x processing pipeline from the specified directory and returns it. It aborts if one of the required files in the specified directory do not exist.

Description

This function reads a matrix generated by the 10x processing pipeline from the specified directory and returns it. It aborts if one of the required files in the specified directory do not exist.

Usage

read10xMatrix(path, version = "V3", transcript.id = "SYMBOL", verbose = TRUE)

Arguments

path

string Location of 10x output

version

string Version of 10x output to read (default='V3'). Must be one of 'V2' or 'V3'.

transcript.id

string Transcript identifier to use (default='SYMBOL'). Must be either 'SYMBOL' (e.g. "Sox17") or 'ENSEMBL' (e.g. "ENSMUSG00000025902"). This value is case-sensitive.

verbose

boolean Whether to return verbose output

Value

parsed 10x outputs into a matrix