Metadata-Version: 1.1
Name: scelvis
Version: 0.8.4
Summary: Single-cell RNA-seq data visualization
Home-page: https://github.com/bihealth/scelvis
Author: Benedikt Obermayer, Manuel Holtgrewe
Author-email: benedikt.obermayer@bihealth.de, manuel.holtgrewe@bihealth.de
License: MIT license
Description: =======================================
        SCelVis: Easy Single-Cell Visualization
        =======================================
        
        .. image:: https://img.shields.io/conda/dn/bioconda/scelvis.svg?label=Bioconda
            :target: https://bioconda.github.io/recipes/scelvis/README.html
        
        .. image:: https://img.shields.io/pypi/pyversions/scelvis.svg
            :target: https://www.python.org
        
        .. image:: https://img.shields.io/pypi/v/scelvis.svg
            :target: https://pypi.python.org/pypi/scelvis
        
        .. image:: https://api.codacy.com/project/badge/Grade/9ee0ec1424c143dfad9977a649f917f7
            :target: https://www.codacy.com/app/bihealth/scelvis?utm_source=github.com&amp;utm_medium=referral&amp;utm_content=bihealth/scelvis&amp;utm_campaign=Badge_Grade
        
        .. image:: https://api.codacy.com/project/badge/Coverage/9ee0ec1424c143dfad9977a649f917f7
            :target: https://www.codacy.com/app/bihealth/scelvis?utm_source=github.com&amp;utm_medium=referral&amp;utm_content=bihealth/scelvis&amp;utm_campaign=Badge_Coverage
        
        .. image:: https://readthedocs.org/projects/scelvis/badge/?version=latest
            :target: https://scelvis.readthedocs.io/en/latest/?badge=latest
            :alt: Documentation Status
        
        .. image:: https://travis-ci.org/bihealth/scelvis.svg?branch=master
            :target: https://travis-ci.org/bihealth/scelvis
        
        .. image:: https://zenodo.org/badge/185944510.svg
            :target: https://zenodo.org/badge/latestdoi/185944510
        
        -------------
        Documentation
        -------------
        
        The SCelVis documentation at `ReadTheDocs.org <https://scelvis.readthedocs.org>`_ contains comprehensive information including a `Tutorial <https://scelvis.readthedocs.io/en/latest/tutorial_analysis.html>`_.
        
        -----
        Movie
        -----
        
        .. image:: docs_manual/figures/scelvis_movie.gif
            :height: 400px
            :align: center
        
        ------------
        Installation
        ------------
        
        You can install with Pip and Bioconda or run directly via Docker.
        
        .. code-block:: shell
        
            $ pip install scelvis
            # OR
            $ conda install scelvis
            # OR
            $ docker run quay.io/biocontainers/scelvis:0.7.3--py_0 scelvis --help
        
        Look up the latest version (instead of ``0.7.3`` to use at `here <https://quay.io/repository/biocontainers/scelvis?tab=tags>`_)
        
        
        =======
        History
        =======
        
        ------
        v0.8.4
        ------
        
        - fix bug in custom static folder route
        - fix iRODS authentication defaults
        
        ------
        v0.8.3
        ------
        
        - allow custom markdowns for home screen
        - enable gene-gene plots and change colormap for gene scatter
        
        ------
        v0.8.2
        ------
        
        - fix iRODS authentication issues
        - update docs for .h5ad input
        
        ------
        v0.8.1
        ------
        
        - fixing iframe sources (important if running behind reverse proxy with HTTPS)
        - link documentation on home screen
        
        ------
        v0.8.0
        ------
        
        - adding sphinx documentation for ReadTheDocs
        - upload and convert with IFrames; increase size limit
        - add box plots
        
        ------
        v0.7.3
        ------
        
        - fix cache timeout error
        
        ------
        v0.7.2
        ------
        
        - fix ReferenceError
        - updated README and tutorialmovie
        
        ------
        v0.7.1
        ------
        
        - improved cache handling
        - improved user feedback for filtering & differential expression
        
        ------
        v0.7.0
        ------
        
        - added conversion from .loom files
        - cell filtering also supports downsampling
        - added PBMC dataset hosted on figshare
        - added demo movie
        
        ------
        v0.6.0
        ------
        
        - cell filtering
        - differential expression
        
        ------
        v0.5.0
        ------
        
        - upgrades to Dash v1
        - fixes to UI, upload and conversion
        - avoid creation of dense matrices
        
        ------
        v0.4.1
        ------
        
        - Fixing bug with specifying single ``.h5ad`` file as data source.
        - Adding ``Dockerfile`` for building Docker images from intermediate versions.
        
        ------
        v0.4.0
        ------
        
        - Adding support for HTTP(S) data sources.
        - Embedding ``about.md`` information in Anndata file.
        - Adding support for passing
        
        ------
        v0.3.0
        ------
        
        - Adding example data set.
        - Adding nice introduction to start page.
        - Adding functionality for creating simple fake data set.
        - Making import of ``ruamel_yaml`` more robust still.
        - Adding tests.
        - Adding Travis CI--based continuous integration tests.
        
        ------
        v0.2.1
        ------
        
        - Fixing SFTP support.
        - Fixing import of ``ruamel_yaml``.
        
        ------
        v0.2.0
        ------
        
        - More refactorization.
        - Fixing dependency on ``ruamel-yaml`` to ``ruamel.yaml``.
        - Adding conversion feature.
        - Adding upload feature.
        - Adding support to load from SSHFS, FTP through pyfilesystem (no FTPS support).
        - Adding support to load from iRODS, also works via tickets (pass ``?ticket=TICKET`` to the query parameters).
        
        ------
        v0.1.0
        ------
        
        Initial release.
        
        - Everything is new!
        
Keywords: single-cell,visualization,bioinformatics
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: MIT License
Classifier: Natural Language :: English
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.6
Classifier: Programming Language :: Python :: 3.7
