gedi2py.io.read_10x_mtx¶

gedi2py.io.read_10x_mtx(path, *, var_names='gene_symbols', make_unique=True)[source]¶

Read 10X Genomics MTX directory.

Reads gene expression data from 10X Genomics Market Exchange format directory (matrix.mtx, genes.tsv/features.tsv, barcodes.tsv).

Parameters:

path (str | Path) – Path to the directory containing matrix files.
var_names (str, default: 'gene_symbols') – Which column to use for variable names: 'gene_symbols' or 'gene_ids'.
make_unique (bool, default: True) – If True, make variable names unique by appending suffixes.

Return type:

Annotated data matrix.

Examples

>>> import gedi2py as gd
>>> adata = gd.read_10x_mtx("filtered_feature_bc_matrix/")