.. _docs_citation:

.. spelling:word-list::

       Neuro
       Colorectal

Citations
=========

This section gives instructions on how to cite GenPipes Publications and lists examples of citing articles.

GenPipes Citation
-----------------

When citing GenPipes for a publication, please cite the following article in you paper:

.. image:: /img/gp_citation.png

You can download the citation from the :ref:`Download section <doc_download_citation_format>` below. A complete listing of all GenPipes publications is available in the :ref:`Publications <docs_publications>` section under GenPipes Resources Navigation link on the left hand side of this documentation.

Citation Examples
-----------------

#. (June 2019) Colorectal cancer-derived extracellular vesicles induce transformation of fibroblasts into colon carcinoma cells. See `PDF here <https://jeccr.biomedcentral.com/articles/10.1186/s13046-019-1248-2>`_.

#.  (May 2018) Whole Genome Sequencing for Mutation Discovery in Rare Neuro-developmental Disorders. `Refer to the PDF here <https://www.researchgate.net/publication/336920480_Found_in_Transcription_Gene_fusions_arise_through_defects_in_RNA_processing_in_the_absence_of_chromosomal_rearrangements>`_.

#. (June 2019) GenPipes: an open-source framework for distributed and scalable genomic analysis. `GigaScience, Volume 8, Issue 6, <https://academic.oup.com/gigascience/article/8/6/giz037/5513895>`_.

#. BioRxiv GenPipes Paper `DOI <https://www.biorxiv.org/content/10.1101/459552v1>`_.

.. _doc_download_citation_format:

Download GenPipes Citation
---------------------------

* :download:`Plain Text </ref/gp_citation.txt>`. 
* :download:`Bibtex </ref/gp_citation.bib>`.
* :download:`PDF </ref/gp_citation.pdf>`.

Download Method Descriptions
-----------------------------

Following are the methods descriptions for the DNA-seq and RNA-seq pipelines. GenPipes users can use these descriptions of methods in their manuscripts. 

* :download:`Refer to the method description </ref/met_des_dna_seq.pdf>` for :ref:`DNA Sequencing Pipeline<docs_gp_dnaseq>` 
* :download:`Refer to the method description </ref/met_des_rna_seq.pdf>` for :ref:`RNA Sequencing Pipeline<docs_gp_rnaseq>`