Metadata-Version: 1.1
Name: seqcluster
Version: 1.1.2
Summary: Small RNA-seq pipeline
Home-page: http://github.com/lpantano/seqcluster
Author: Lorena Pantano
Author-email: lpantano@iscb.org
License: MIT
Description: seqcluster
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        Ask questions in the repo's Gitter: Join the chat at:
        
        .. image:: https://badges.gitter.im/Join%20Chat.svg
            :target: https://gitter.im/lpantano/seqcluster
            
        small RNA analysis from NGS data
        
        .. image:: https://travis-ci.org/lpantano/seqcluster.png?branch=master
            :target: https://travis-ci.org/lpantano/seqcluster.png?branch=master
        
        .. image:: https://badge.fury.io/py/seqcluster.svg
            :target: http://badge.fury.io/py/seqcluster
        
        .. image:: https://pypip.in/d/seqcluster/badge.png
            :target: https://pypi.python.org/pypi/seqcluster
        
        
        Cite
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        A non-biased framework for the annotation and classification of the non-miRNA small RNA transcriptome.
        Pantano L1, Estivill X, Martí E. Bioinformatics. 2011 Nov 15;27(22):3202-3. doi: 10.1093/bioinformatics/btr527. Epub 2011 Oct 5.
        PMID: 21976421
        
        quick start links
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        See installation at http://seqcluster.readthedocs.org/installation.html
        
        Moreover `seqcluster-helper`_ provides 
        a python framework to run a whole pipeline for small RNA (miRNA + tRNA + piRNA + others).
        
        .. _seqcluster-helper: http://seqcluster.readthedocs.org/getting_started.html#easy-start-with-seqcluster-helper-py
        
        Complete tutorial is here: http://seqcluster.readthedocs.org/getting_started.html#clustering-of-small-rna-sequences
        
        report
        ---------
        
        Seqcluster creates html report that looks like `this`_. That is a table of all cluster detected, and you 
        can go into each of them and get a complete `description`_ with profile expression figures, annotation details and
        sequences counts for each sample.
        
        .. _this: https://rawgit.com/lpantano/seqcluster/master/data/examples_report/html/index.html
        .. _description: https://rawgit.com/lpantano/seqcluster/master/data/examples_report/html/1/maps.html
        
        Contributors
        ------------
        
        * `Lorena Pantano  <https://github.com/lpantano>`_ (Bioinformatic Core, Harvard Chan School, Boston, USA)
        * `Judith Flo Gaya <http://www.seas.harvard.edu/directory/jflo>`_ (School of Engineer and Aplied Science- Harvard University, Boston, USA)
        * `Eulalia Marti Puig <http://www.crg.eu/en/group-members/eul%C3%A0lia-mart%C3%AD-puig>`_ (Genomics and Disease, Center of Genomic Regulation, Barcelona, Spain)
        
Keywords: RNA-seq miRNA snoRNA NGS
Platform: UNKNOWN
Classifier: License :: OSI Approved :: MIT License
Classifier: Programming Language :: Python :: 2.7
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
