spateo.io.merfish
=================

.. py:module:: spateo.io.merfish

.. autoapi-nested-parse::

   IO functions for MERFISH technology.



Functions
---------

.. autoapisummary::

   spateo.io.merfish.read_merfish_as_anndata
   spateo.io.merfish.read_merfish_positions_as_dataframe
   spateo.io.merfish.read_merfish


Module Contents
---------------

.. py:function:: read_merfish_as_anndata(path: str) -> anndata.AnnData

   Read MERFISH matrix as AnnData.

   :param matrix_dir: Path to matrix file.

   :returns: AnnData of cell x genes.


.. py:function:: read_merfish_positions_as_dataframe(path: str) -> pandas.DataFrame

   Read MERFISH cell positions CSV as dataframe.

   :param path: Path to file

   :returns: DataFrame containing cell positions.


.. py:function:: read_merfish(path: str, positions_path: str) -> anndata.AnnData

   Read MERFISH data as AnnData.

   :param path: Path to matrix files
   :param positions_path: Path to xlsx containing spatial coordinates