[SocBiN] Announcing CBioVikings Symposium on Tools for Reproducibility in Bioinformatics

[Alexander Junge]

CBioVikings - ISCB Regional Student Group Denmark
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Announcing CBioVikings Symposium on Tools for Reproducibility in
Bioinformatics

*Date:* April 21st 2016, 15:00-18:00
*Location:*  Room A2-81.01 (3-01), Thorvaldsensvej 40,  Frederiksberg,
University of Copenhagen, Denmark
*Sign up (by April 19th 2016):* http://goo.gl/forms/Pq5c0ES2NG
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*Synopsis: *This afternoon symposium will gather together researchers who
are building and using open source tools to conduct reproducible science.
We will discuss the advantages and difficulties with this approach, and
will explore the best ways to implement it in practice.

Refreshments will be served.

This event is co-organized by IDA Biotechnology, the Danish
Biotechnological Society (DBS) and CBioVikings - ISCB Regional Student
Group Denmark. Event sponsors are intomics and Palantir.


*Confirmed speakers Kai Blin* (Postdoc, Novo Nordisk Foundation Center for
Biosustainability, Technical University of Denmark)

Kai is an active contributor to many open source projects including
Biopython and Samba, and is an advocate for open science approaches. His
talk will discuss his personal approach to reproducible research.

*Geoff Macintyre* (Research Associate, Cambridge Cancer Center, University
of Cambridge, UK)

Geoff is a computational biologist who models tumor evolution. His talk
will focus on concrete ways in which reproducible science benefits the
careers of the researchers who implement it.

Full program will soon be available at:
http://cbiovikings.org/events/upcoming/reproducibility.html
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*Why is reproducible research important to bioinformaticians?*

It was reported last year that 50% of biomedical studies are not
reproducible, and it may be the case that the percentage is even higher.
The causes for not being able to reproduce research studies are numerous,
but generally relate to a lack of documentation of materials, protocols, or
study design. Regardless of the cause, the impacts of studies that cannot
be verified are similar: they represent wasted funds and effort, and delay
translation of research to the clinic.
Reproducible analyses help to avoid these problems, since they can be
easily rerun and verified by reviewers or third parties, and shared between
research groups. Further, conducting research with a focus on
reproducibility also gives direct benefits to the researchers themselves.
For example, results can be brought more quickly up to date with less
chance of human errors, which enables continuity on long term projects.
Ultimately this means that higher quality science can be done faster.
Since most bioinformatics analysis is done with computers, reproducibility
initially seems like an easy goal to reach. However, in practice
bioinformaticians face many barriers that prevent true reproducibility,
such as versioning, data management, and documentation challenges. This
symposium will focus on the tools that help overcome these challenges:
languages like R and Python are used to script analyses, version control
systems track changes between collaborators, documentation systems like
knitR and Jupyter notebooks document analyses, and container systems like
Docker deploy finished projects. Young researchers will learn how to
implement these tools in their own research to the benefit of their own
scientific development.

References:
http://whyopenresearch.org/
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http://genomebiology.biomedcentral.com/articles/10.1186/s13059-015-0850-7
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http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003285
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*Sponsors*
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*intomics *- Visit their website at: https://www.intomics.com/
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*Palantir *- Visit their website at: https://www.palantir.com/
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Co-organizers:
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