read_10x: Read 10x Output

View source: R/Utilities.R

read_10xR Documentation

Read 10x Output

Description

Loads 10x output counts and converts expression to gene symbols

Usage

read_10x(expression, genes, barcodes, ensToSymbol = TRUE)

Arguments

expression

path to matrix.mtx

genes

path to genes.tsv

barcodes

path to barcodes.tsv

ensToSymbol

bool denoting whether or not to perform label conversion

Details

This version takes in three files as inputs:

  1. matrix.mtx

  2. genes.tsv

  3. barcodes.tsv

These files are found in the output of "cellranger count" in a folder that looks like:

outs/filtered_gene_bc_matrices/mm10

though with the name of whichever genome you are using instead of 'mm10'

Value

sparse count matrix with appropriate row/column names


YosefLab/VISION documentation built on June 14, 2024, 5:27 p.m.