Metadata-Version: 1.2
Name: scanpy-utils
Version: 0.1
Summary: Utility functions for scanpy
Home-page: https://github.com/NUPulmonary/scanpy-utils
Author: Nikolay Markov
Author-email: nikolay.markov@northwestern.edu
License: MIT
Project-URL: Documentation, https://scanpy-utils.readthedocs.io/
Project-URL: Changelog, https://scanpy-utils.readthedocs.io/en/latest/changelog.html
Project-URL: Issue Tracker, https://github.com/NUPulmonary/scanpy-utils/issues
Description: ========
        Overview
        ========
        
        
        
        Utility functions for `scanpy <https://scanpy.readthedocs.io>`_
        
        * Free software: MIT license
        
        Installation
        ============
        
        ::
        
            pip install scanpy-utils
        
        
        Documentation
        =============
        
        
        See https://scanpy-utils.readthedocs.io/en/latest/reference/index.html
        
        
        Development
        ===========
        
        To run all the tests run::
        
            tox
        
        Note, to combine the coverage data from all the tox environments run:
        
        .. list-table::
            :widths: 10 90
            :stub-columns: 1
        
            - - Windows
              - ::
        
                    set PYTEST_ADDOPTS=--cov-append
                    tox
        
            - - Other
              - ::
        
                    PYTEST_ADDOPTS=--cov-append tox
        
        
        Changelog
        =========
        
        0.1 (2021-06-24) Initial release
        --------------------------------
        
        * ``get_markers`` function to extract markers from adata and add ``pct.1``, ``pct.2`` fields
        * ``write_mtx`` function to dump adata in cellranger mtx format
        * ``clean_metadata`` function to merge and remove duplicates from ``adata.var`` after merging
        
        Plotting:
        
        * ``feature_plot`` function to plot hexbin feature plot on UMAP
        * ``plot_composition`` function to plot composition of clusters based on other metadata
        * ``expr_colormap`` function with custom colormap for expression
        
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: Unix
Classifier: Operating System :: POSIX
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3 :: Only
Classifier: Programming Language :: Python :: 3.7
Classifier: Programming Language :: Python :: 3.8
Classifier: Programming Language :: Python :: 3.9
Classifier: Programming Language :: Python :: Implementation :: CPython
Classifier: Programming Language :: Python :: Implementation :: PyPy
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Python: >=3.7
