get10Xmatrix_h5#

Last Updated: Jan 29, 2024

Description#

This function creates an expression matrix from a 10X h5 file path

Usage#

get10Xmatrix_h5(
  path_to_data,
  gene_ids = c("symbols", "ensembl"),
  remove_zero_rows = TRUE,
  split_by_type = TRUE
)

Arguments#

`path_to_data`	path to the 10X .h5 file
`gene_ids`	use gene symbols (default) or ensembl ids for the gene expression matrix
`remove_zero_rows`	removes rows with sum equal to zero
`split_by_type`	split into multiple matrices based on 3rd column of features.tsv(.gz)

Details#

If the .h5 10x file has multiple classes of features (e.g. expression vs QC probes) or modalities (e.g. RNA and protein), and split_by_type param is TRUE, multiple matrices will be returned

Value#

(list of) sparse expression matrix from 10X