Metadata-Version: 2.1
Name: squidpy
Version: 1.0.0
Summary: Squidpy - Spatial Single Cell Analysis in Python
Home-page: https://github.com/theislab/squidpy
Author: Theislab
Author-email: giovanni.palla@helmholtz-muenchen.de, hannah.spitzer@helmholtz-muenchen.de
Maintainer: Theislab
Maintainer-email: giovanni.palla@helmholtz-muenchen.de, hannah.spitzer@helmholtz-muenchen.de
License: BSD
Download-URL: https://pypi.org/project/squidpy/
Project-URL: Documentation, https://squidpy.readthedocs.io/en/latest
Project-URL: Source Code, https://github.com/theislab/squidpy
Description: |PyPI| |Downloads| |CI| |Notebooks| |Docs| |Coverage|
        
        Squidpy - Spatial Single Cell Analysis in Python
        ================================================
        
        .. image:: https://raw.githubusercontent.com/theislab/squidpy/master/docs/source/_static/img/squidpy_horizontal.png
            :alt: Logo
            :width: 400px
            :align: center
        
        **Squidpy** is a tool for the analysis and visualization of spatial molecular data.
        It builds on top of `scanpy`_ and `anndata`_, from which it inherits modularity and scalability.
        It provides analysis tools that leverages the spatial coordinates of the data, as well as
        tissue images if available.
        
        .. image:: https://raw.githubusercontent.com/theislab/squidpy/master/docs/source/_static/img/figure1.png
            :alt: Title figure
            :width: 400px
            :align: center
            :target: https://www.biorxiv.org/content/10.1101/2021.02.19.431994v1
        
        Visit our `documentation`_ for installation, tutorials, examples and more.
        
        Manuscript
        ----------
        Please see our `preprint`_ on **bioRxiv** to learn more.
        
        Squidpy's key applications
        --------------------------
        - Build and analyze the neighborhood graph from spatial coordinates.
        - Compute spatial statistics for cell-types and genes.
        - Efficiently store, analyze and visualize large tissue images, leveraging `skimage`_.
        - Explore `anndata`_ and the large tissue image in `napari`_.
        
        Installation
        ------------
        Install Squidpy via PyPI by running::
        
            pip install squidpy
        
        Contributing to Squidpy
        -----------------------
        We are happy about any contributions! Before you start, check out our `contributing guide <CONTRIBUTING.rst>`_.
        
        .. |PyPI| image:: https://img.shields.io/pypi/v/squidpy.svg
            :target: https://img.shields.io/pypi/v/squidpy.svg
            :alt: PyPI
        
        .. |CI| image:: https://img.shields.io/github/workflow/status/theislab/squidpy/CI/master
            :target: https://github.com/theislab/squidpy/actions
            :alt: CI
        
        .. |Notebooks| image:: https://img.shields.io/github/workflow/status/theislab/squidpy_notebooks/CI/master?label=notebooks
            :target: https://github.com/theislab/squidpy_notebooks/actions
            :alt: Notebooks CI
        
        .. |Docs| image:: https://img.shields.io/readthedocs/squidpy
            :target: https://squidpy.readthedocs.io/en/latest/
            :alt: Documentation
        
        .. |Coverage| image:: https://codecov.io/gh/theislab/squidpy/branch/master/graph/badge.svg
            :target: https://codecov.io/gh/theislab/squidpy
            :alt: Coverage
        
        .. |Downloads| image:: https://pepy.tech/badge/squidpy
            :target: https://pepy.tech/project/squidpy
            :alt: Downloads
        
        .. _preprint: https://www.biorxiv.org/content/10.1101/2021.02.19.431994v1
        .. _scanpy: https://scanpy.readthedocs.io/en/latest/
        .. _anndata: https://anndata.readthedocs.io/en/latest/
        .. _napari: https://napari.org/
        .. _skimage: https://scikit-image.org/
        .. _documentation: https://squidpy.readthedocs.io/en/latest/
        
Keywords: bio-informatics,image analysis,single-cell,spatial data analysis,spatial data analysis,spatial transcriptomics
Platform: Linux
Platform: MacOSX
Classifier: Development Status :: 5 - Production/Stable
Classifier: Intended Audience :: Science/Research
Classifier: Natural Language :: English
Classifier: License :: OSI Approved :: BSD License
Classifier: Operating System :: POSIX :: Linux
Classifier: Operating System :: MacOS :: MacOS X
Classifier: Typing :: Typed
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.7
Classifier: Programming Language :: Python :: 3.8
Classifier: Programming Language :: Python :: 3.9
Classifier: Environment :: Console
Classifier: Framework :: Jupyter
Classifier: Intended Audience :: Science/Research
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Topic :: Scientific/Engineering :: Visualization
Description-Content-Type: text/x-rst; charset=UTF-8
Provides-Extra: dev
Provides-Extra: test
Provides-Extra: docs
Provides-Extra: interactive
Provides-Extra: all
