Metadata-Version: 1.2
Name: sequana-pipetools
Version: 0.1.2
Summary: A set of utilities to manager sequana pipelines
Home-page: https://github.com/sequana/sequana_pipetools
Author: thomas cokelaer
Author-email: thomas.cokelaer@pasteur.fr
Maintainer: thomas cokelaer
Maintainer-email: thomas.cokelaer@pasteur.fr
License: new BSD
Description: :Overview: A set of tools to help building or using sequana pipelines
        :Status: Production
        :Citation: Cokelaer et al, (2017), ‘Sequana’: a Set of Snakemake NGS pipelines, Journal of Open Source Software, 2(16), 352, JOSS DOI doi:10.21105/joss.00352
        
        .. image:: https://badge.fury.io/py/sequana_pipetools.svg
            :target: https://pypi.python.org/pypi/sequana_pipetools
        
        .. image:: https://travis-ci.org/sequana/sequana_pipetools.svg?branch=master
            :target: https://travis-ci.org/sequana/sequana_pipetools
        
        .. image:: https://coveralls.io/repos/github/sequana/sequana_pipetools/badge.svg?branch=master
            :target: https://coveralls.io/github/sequana/sequana_pipetools?branch=master 
        
        .. image:: http://joss.theoj.org/papers/10.21105/joss.00352/status.svg
           :target: http://joss.theoj.org/papers/10.21105/joss.00352
           :alt: JOSS (journal of open source software) DOI
        
        
        
        What is sequana_pipetools ?
        ============================
        
        **sequana_pipetools** is a set of tools to help us in managing the **Sequana** pipelines.
        
        This has the advantage of being pure Python library without the needs to update
        **Sequana** itself.
        
        
        **Sequana** is a versatile tool that provides 
        
        #. A Python library dedicated to NGS analysis (e.g., tools to visualise standard NGS formats).
        #. A set of Pipelines dedicated to NGS in the form of Snakefiles
           (Makefile-like with Python syntax based on snakemake framework) with more
           than 80 re-usable rules.
        #. Standalone applications.
        
        See the `sequana home page <https://sequana.readthedocs.io>`_ for details.
        
        
        To join the project, please let us know on `github <https://github.com/sequana/sequana/issues/306>`_.
        
        Installation
        ============
        
        from pypi website::
        
            pip install sequana_pipetools
        
        No dependencies for this package except Python itself. Although, when using it,
        you will need to install the relevant Sequana pipelines that you wish to use. 
        
        This package is for `Sequana <https://sequana.readthedocs.io>`_ developers. To get more help, go to the doc
        directory and build the local sphinx directory using::
        
            make html
            browse build/html/index.html
        
        Usage
        ======
        
        There is currently only one tool to be used as follows::
        
            sequana_completion --pipeline fastqc
        
        Changelog
        =========
        
        ========= ====================================================================
        Version   Description
        ========= ====================================================================
        0.1.2     add version of the pipeline in the output completion file 
        0.1.1     release bug fix
        0.1.0     creation of the package
        ========= ====================================================================
        
Keywords: snakemake, sequana, RNAseq, differential analysis
Platform: Linux
Platform: Unix
Platform: MacOsX
Platform: Windows
Classifier: Development Status :: 5 - Production/Stable
Classifier: Intended Audience :: Education
Classifier: Intended Audience :: End Users/Desktop
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: BSD License
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python :: 3.5
Classifier: Programming Language :: Python :: 3.6
Classifier: Topic :: Software Development :: Libraries :: Python Modules
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Topic :: Scientific/Engineering :: Information Analysis
Classifier: Topic :: Scientific/Engineering :: Mathematics
Classifier: Topic :: Scientific/Engineering :: Physics
