Metadata-Version: 1.1
Name: alfpy
Version: 1.0.6
Summary: Alignment-free package to compare DNA/RNA/protein sequences (bioinformatics).
Home-page: http://www.combio.pl/alfree
Author: Andrzej Zielezinski
Author-email: andrzejz@amu.edu.pl
License: MIT
Description-Content-Type: UNKNOWN
Description: |Travis| |PyPI| |Landscape| |Codecov|
        
        alfpy
        =====
        
        alfpy is a bionformatics Python package that provides alignment-free framework 
        to compare biological sequences (DNA/RNA/protein) and infers their 
        phylogenetic relationships. 
        
        alfpy also contains Python scripts with user-friendly command-line interfaces 
        that let you compare unaligned FASTA sequences with more than 40 distance methods.
        
        
        Latest source code
        ------------------
        The official source code repository is at: https://github.com/aziele/alfpy
        
        
        Web sites
        ---------
        alfpy is also available as a web app: http://www.combio.pl/alfree
        
        
        Requirements
        ============
        
        1. Python (https://www.python.org/) version 2.7 or >= 3.3
        2. NumPy (http://www.numpy.org/).
        
        
        Installation
        ============
        
        Option 1: Get the latest official version
        -----------------------------------------
        
        Install the latest official version with `pip <https://pip.pypa.io/en/stable/installing/>`_
        ::
        
           sudo pip install alfpy
        
        If you are not allowed to use `sudo`, install alfpy as user::
        
           sudo pip install --user alfpy
        
        
        
        Option 2: Get the latest development version
        --------------------------------------------
        
        Get it using this shell command, which requires Git::
        
           git clone https://github.com/aziele/alfpy.git
        
        If you don't feel like using git, just download the package manually as a `gzipped tarball <https://github.com/aziele/alfpy/archive/master.zip/>`_.
        
        Unpack the zip package, go to the directory and run the installation::
        
           cd alfpy
           python setup.py install
        
        or::
        
           python setup.py install --user
        
        Alfpy usage
        ===========
        
        The examples of using Alfpy are available at: http://www.combio.pl/alfree/download/.
        
        
        Testing
        =======
        
        To run tests, go to the alfpy source code directory and type::
        
            python -m unittest discover
        
        
        If you want to test a specific file (e.g. ``test_word_distance.py``), type::
        
            python -m unittest tests.test_word_distance
        
        
        Contact
        =======
        
        Drop us any feedback at: bioinfo@amu.edu.pl or on twitter `@a_zielezinski <https://twitter.com/a_zielezinski>`_.
        
        License
        =======
        
        alfpy is under the MIT license; see ``LICENSE.txt``. Distribution, 
        modification and redistribution, incorporation into other software,
        and pretty much everything else is allowed.
        
        
        .. |Travis| image:: https://travis-ci.org/aziele/alfpy.svg?branch=master
            :target: https://travis-ci.org/aziele/alfpy
        
        
        .. |PyPI| image:: https://img.shields.io/pypi/v/alfpy.svg?branch=master
            :target: https://pypi.python.org/pypi/alfpy
        
        .. |Landscape| image:: https://landscape.io/github/aziele/alfpy/master/landscape.svg?style=flat
           :target: https://landscape.io/github/aziele/alfpy/master
           :alt: Code Health
        
        .. |Codecov| image:: https://codecov.io/gh/aziele/alfpy/branch/master/graph/badge.svg
           :target: https://codecov.io/gh/aziele/alfpy
        
Keywords: alignment-free bioinformatics sequence DNA protein homology phylogeny
Platform: UNKNOWN
Classifier: License :: OSI Approved :: MIT License
Classifier: Environment :: Console
Classifier: Operating System :: MacOS
Classifier: Operating System :: POSIX :: Linux
Classifier: Programming Language :: Python :: 2
Classifier: Programming Language :: Python :: 2.7
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.3
Classifier: Programming Language :: Python :: 3.4
Classifier: Programming Language :: Python :: 3.5
Classifier: Topic :: Scientific/Engineering
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
