1. Data visualisation for reproducibility
BioJS Conference, 3 July 2015
Rebecca Lawrence
Managing Director, F1000 Research Ltd
@f1000research | @rnl_s

3. open science publishing platform
Author-led publishing:
Immediate publication
Transparent refereeing
No editorial bias
Data & software included

4. Reproducibility problem
Begley & Ellis 2012 (Nature): 53 ‘landmark’ studies  only 6 (11%) replicated.
Failure to adhere to good scientific practice: blinding, randomization, replication, sample-size calculation
‘Publish or perish’ culture  emphasis on impactful statements
Lack of supporting data shared
Lack of methods/technical detail
Journals starting to address these issues, e.g. eLife, F1000Research

5. Not just sharing, but making it reusable
Sharing data alone isn’t adequate
Need detailed protocol/methods
Need data in an understandable and reusable format
For computational studies, need details of environment
Replication can be time consuming and expensive
Peer review of the data can be time consuming and therefore not (properly) done

6. Full data integration with research articles
Datasets within article
are citable and
downloadable.

7. In-article data manipulation

8. Figures that don’t exist
Simply data + code
Creates opportunities to change the definition of a figure, and ultimately the journal article
Colomb J and Brembs B.
Sub-strains of Drosophila Canton- S differ markedly in their locomotor behavior [v1; ref status: indexed,
F1000Research 2014, 3:176

9. Living figures
FIGURE 4. In: Colomb J and Brembs B. Sub-strains of Drosophila Canton-S differ markedly in their locomotor behavior [v2; ref status: indexed, f1000r.es/57i] F1000Research 2014, 3:176

10. Lack of awareness of data formatting requirements
challenges
Lack of awareness of data formatting requirements
Lack of programming expertise in many research groups
Quality of the code – time and expense
Reusability of code:
Lack of standards
Vast number of data types, output types
For many publishers, complex publishing systems that are licensed in and hard to change/adapt
Industry-built code often not open source
Often not possible to embed visualisation tool within article page

12. @f1000 | @f1000research | @rnl_s
Thank you!
@f1000 | @f1000research | @rnl_s