This function creates an expression matrix from a 10X structured folder
get10Xmatrix(path_to_data, gene_column_index = 1)
| path_to_data | path to the 10X folder |
|---|---|
| gene_column_index | which column from the features or genes .tsv file to use for row ids |
sparse expression matrix from 10X
A typical 10X folder is named raw_feature_bc_matrix or raw_feature_bc_matrix and it has 3 files:
barcodes.tsv(.gz)
features.tsv(.gz) or genes.tsv(.gz)
matrix.mtx(.gz)
By default the first column of the features or genes .tsv file will be used, however if multiple annotations are provided (e.g. ensembl gene ids and gene symbols) the user can select another column.