Loads 10x output counts and converts expression to gene symbols
read_10x_h5(h5_file, ensToSymbol = TRUE)path to h5 file
bool denoting whether or not to perform label conversion
Return value depends on whether this is a Cellranger v3 or Cellranger v2 output If it is a v2 output, return is a sparse count matrix with gene expression values If it is a v3 output, return value is a list with two entries: Expression: sparse count matrix with gene expression counts (genes x cells) Antibody: sparse count matrix with antibody capture counts (cells x antibodies)
This version uses the h5 file produced by "cellranger count"
This file is typically in a folder that looks like:
outs/filtered_gene_bc_matrices_h5.h5