Metadata-Version: 2.1
Name: MAGINE
Version: 0.0.13
Summary: Package to analyze biological data.
Home-page: https://github.com/LoLab-VU/Magine
Author: James Pino
Author-email: james.ch.pino@gmail.com
License: UNKNOWN
Description: =================================================================
        MAGINE : Mechanism of Action Generator involving Network Analysis
        =================================================================
        
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           :alt: Documentation Status
        
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        MAGINE is a framework for the analysis of quantitative multi-omics data.
        It was designed to handle multi-sample (time points) and multi-omics
        (rnaseq, label-free proteomics, etc). Users are provided access to tools driven
        around their experimental data. Provides access to enrichment analysis, biological
        network construction and various visualization methods.
        
        
        Documentation
        =============
        
        The manual is available online at http://magine.readthedocs.io.
        
        .. _Anaconda: https://www.anaconda.com/distribution/#download-section
        
        Installation
        ============
        
        1. Install Anaconda
        
           Our recommended approach is to use Anaconda_, which is a
           distribution of Python containing most of the numeric and scientific
           software needed to get started. If you are a Mac or Linux user, have
           used Python before and are comfortable using ``pip`` to install
           software, you may want to skip this step and use your existing Python
           installation.
        
           Anaconda has a simple graphical installer which can be downloaded
           from https://www.anaconda.com/distribution/#download-section - select
           your operating system and download the **Python 3.7 version**. The
           default installer options are usually appropriate.
        
        2. Open a terminal
        
           We will install most packages with conda::
        
              $ conda create -n magine_env python=3.7
              $ conda activate magine_env
              $ conda config --add channels conda-forge
              $ conda install jinja2 statsmodels networkx graphviz
              $ conda install -c marufr python-igraph
        
           **Windows users:** Please download and install igraph and pycairo
           using the wheel files provided by Christoph Gohlke, found at
           https://www.lfd.uci.edu/~gohlke/ . Download and install via pip.
        
        3. Install MAGINE
        
           The installation is very straightforward with ``pip`` - type the following in a terminal::
        
              $ pip install magine
        
        4. Start Python and MAGINE
        
           From the terminal or command prompt type ::
        
              $ jupyter notebook
        
           You will then be at the Python prompt. Type ``import magine`` to try
           loading magine. If no error messages appear and the next Python
           prompt appears, you have succeeded in installing magine!
        
        
        
        
Keywords: biological networks,biological pathways,enrichment analysis,network analysis,visualization,multi-omics,rnaseq,proteomics,metabolomics
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python :: 2
Classifier: Programming Language :: Python :: 3
Classifier: Intended Audience :: Science/Research
Description-Content-Type: text/x-rst
Provides-Extra: test
