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Ten Simple Rules for Taking Advantage of git and GitHub

View ORCID ProfileYasset Perez-Riverol, View ORCID ProfileLaurent Gatto, Rui Wang, View ORCID ProfileTimo Sachsenberg, View ORCID ProfileJulian Uszkoreit, Felipe da Veiga Leprevost, View ORCID ProfileChristian Fufezan, Tobias Ternent, View ORCID ProfileStephen J. Eglen, View ORCID ProfileDaniel S. Katz, View ORCID ProfileTom J Pollard, View ORCID ProfileAlexander Konovalov, View ORCID ProfileRobert M. Flight, View ORCID ProfileKai Blin, View ORCID ProfileJuan Antonio Vizcaino
doi: https://doi.org/10.1101/048744
Yasset Perez-Riverol
1European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
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Laurent Gatto
2Computational Proteomics Unit, Cambridge Systems Biology Centre, University of Cambridge, Tennis Court Road, Cambridge, CB2 1GA, UK
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Rui Wang
1European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
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Timo Sachsenberg
3Applied Bioinformatics and Department of Computer Science, University of Tübingen, D-72074 Tübingen, Germany
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Julian Uszkoreit
4Medizinisches Proteom-Center, Ruhr-Universität Bochum, Universitätsstr. 150, D-44801 Bochum, Germany
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Felipe da Veiga Leprevost
5Department of Pathology, University of Michigan, Ann Arbor, Michigan 48109, USA
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Christian Fufezan
6Institute of Plant Biology and Biotechnology, University of Muenster, Schlossplatz 8, 48143 Muenster, Germany
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Tobias Ternent
1European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
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Stephen J. Eglen
7Centre for Mathematical Sciences, University of Cambridge, Wilberforce Road, Cambridge CB3 0WA, UK
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Daniel S. Katz
8National Center for Supercomputing Applications & Graduate School of Library and Information Science, University of Illinois, 1205 W. Clark St., Urbana, Illinois 61801, USA
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Tom J Pollard
9MIT Laboratory for Computational Physiology, Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge, MA 02142, USA
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Alexander Konovalov
10Centre for Interdisciplinary Research in Computational Algebra, University of St Andrews, St Andrews, Fife, KY16 9SX, UK
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Robert M. Flight
11Department of Molecular Biology and Biochemistry, Markey Cancer Center, Resource Center for Stable Isotope-Resolved Metabolomics, University of Kentucky, 800 Rose Street Lexington, KY 40536-0093, USA
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Kai Blin
12The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kogle Alle 6, 2970 Hørsholm, Denmark
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Juan Antonio Vizcaino
1European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
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Abstract

A ‘Ten Simple Rules’ guide to git and GitHub. We describe and provide examples on how to use these software to track projects, as users, teams and organizations. We document collaborative development using branching and forking, interaction between collaborators using issues and continuous integration and automation using, for example, Travis CI and codevoc. We also describe dissemination and social aspects of GitHub such as GitHub pages, following and watching repositories, and give advice on how to make code citable.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted May 13, 2016.
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Ten Simple Rules for Taking Advantage of git and GitHub
Yasset Perez-Riverol, Laurent Gatto, Rui Wang, Timo Sachsenberg, Julian Uszkoreit, Felipe da Veiga Leprevost, Christian Fufezan, Tobias Ternent, Stephen J. Eglen, Daniel S. Katz, Tom J Pollard, Alexander Konovalov, Robert M. Flight, Kai Blin, Juan Antonio Vizcaino
bioRxiv 048744; doi: https://doi.org/10.1101/048744
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Ten Simple Rules for Taking Advantage of git and GitHub
Yasset Perez-Riverol, Laurent Gatto, Rui Wang, Timo Sachsenberg, Julian Uszkoreit, Felipe da Veiga Leprevost, Christian Fufezan, Tobias Ternent, Stephen J. Eglen, Daniel S. Katz, Tom J Pollard, Alexander Konovalov, Robert M. Flight, Kai Blin, Juan Antonio Vizcaino
bioRxiv 048744; doi: https://doi.org/10.1101/048744

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