spateo.io.merfish
#
IO functions for MERFISH technology.
Module Contents#
Functions#
|
Read MERFISH matrix as AnnData. |
|
Read MERFISH cell positions CSV as dataframe. |
|
Read MERFISH data as AnnData. |
- spateo.io.merfish.read_merfish_as_anndata(path: str) anndata.AnnData [source]#
Read MERFISH matrix as AnnData.
- Parameters:
- matrix_dir
Path to matrix file.
- Returns:
AnnData of cell x genes.
- spateo.io.merfish.read_merfish_positions_as_dataframe(path: str) pandas.DataFrame [source]#
Read MERFISH cell positions CSV as dataframe.
- Parameters:
- path
Path to file
- Returns:
DataFrame containing cell positions.
- spateo.io.merfish.read_merfish(path: str, positions_path: str) anndata.AnnData [source]#
Read MERFISH data as AnnData.
- Parameters:
- path
Path to matrix files
- positions_path
Path to xlsx containing spatial coordinates