Metadata-Version: 1.1
Name: GEOparse
Version: 0.1.6
Summary: Python library to access Gene Expression Omnibus Database (GEO)
Home-page: https://github.com/guma44/GEOparse
Author: Rafal Gumienny
Author-email: guma44@gmail.com
License: BSD
Description: ===============================
        GEOparse
        ===============================
        
        .. image:: https://img.shields.io/pypi/v/GEOparse.svg
                :target: https://pypi.python.org/pypi/GEOparse
        
        
        Python library to access Gene Expression Omnibus Database (GEO).
        
        GEOparse is python package that can be used to query and retrieve data from Gene Expression Omnibus database (GEO).
        The inspiration and the base for it is great R library GEOquery.
        
        * Free software: BSD license
        * Documentation: https://GEOparse.readthedocs.org.
        
        Features
        --------
        
        * Download GEO series, datasets etc. as SOFT files
        * Download supplementary files for GEO series to use them locally
        * Load GEO SOFT as easy to use and manipulate objects
        * Prepare your data for GEO upload
        
        Installation
        ------------
        
        At the command line::
        
            $ pip install GEOparse
        
        TODO
        ----
        
        There is still work to do so any contribution is welcome.
        The main issues are:
        
        * add checking for compatibility with SOFT files
        * expand GEOTypes objects with useful functions for differential expression analysis
        * share your idea
        
        
        
        
        History
        -------
        
        0.1.6 (2016-04-12)
        ---------------------
        
        * Bugfixes
        * SRA function of GSE can now filter GSMs
        
        
        0.1.5 (2016-02-03)
        ---------------------
        
        * Added functions to download supplementary files including raw files from SRA
        
        0.1.4 (2015-09-27)
        ---------------------
        
        * Updated documentation including example
        * Updated tests: they now cover 80% of library with all important functions
        * Added pivot_and_annotate method to GSE object
        * Bugfixes
        
        0.1.3 (2015-08-30)
        ---------------------
        
        * Updated documentation
        * Added pivot_samples to GSE object
        * Code of GEOTypes was refactored
        * All objects now have to_soft function
        * Various bugfixes
        
        0.1.2 (2015-08-23)
        ---------------------
        
        * Added GDS support
        * Added to_soft methods to GSE, GSM and GPL
        * Added DATABASE entry support to GSE and GDS
        
        0.1.1 (2015-08-16)
        ---------------------
        
        * Brown-Bag release
        
        0.1.0 (2015-08-16)
        ---------------------
        
        * First release on PyPI.
        
Keywords: GEOparse,GEO,Gene Expression Omnibus,Bioinformatics,Microarray
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: Intended Audience :: Developers
Classifier: License :: OSI Approved :: BSD License
Classifier: Natural Language :: English
Classifier: Programming Language :: Python :: 2.7
