Say hello to MuData =================== **MuData** is a format for annotated multimodal datasets. MuData is native to Python but provides cross-language functionality via HDF5-based ``.h5mu`` files. MuData objects as containers ---------------------------- ``mudata`` package introduces multimodal data objects (:class:`mudata.MuData` class) allowing Python users to work with increasigly complex datasets efficiently and to build new workflows and computational tools around it. :: MuData object with n_obs × n_vars = 10110 × 110101  2 modalities   atac: 10110 x 100001   rna: 10110 x 10100 MuData objects enable multimodal information to be stored & accessed naturally, embrace `AnnData `_ for the individual modalities, and can be serialized to ``.h5mu`` files. :doc:`Learn more about multimodal objects ` as well as :doc:`file formats for storing & sharing them `. Natural interface ----------------- MuData objects feature an AnnData-like interface and familiar concepts such as *observations* and *variables* for the two data dimensions. Get familiar with MuData in the :doc:`Quickstart tutorial `. Handling MuData objects ----------------------- A flagship framework for multimodal omics analysis — ``muon`` — has been built around the MuData format. Find more information on it `in its documentation `_ and `on the tutorials page `_ as well as `in the corresponding publication `_. .. toctree:: :hidden: :maxdepth: 1 :caption: Getting started notebooks/quickstart_mudata.ipynb notebooks/nuances.ipynb notebooks/axes.ipynb .. toctree:: :hidden: :maxdepth: 1 :caption: Documentation install io/input io/mudata io/output io/spec api/index changelog