publishing data and code openly

Thomas IngrahamPublishing Editor, F1000Research thomas.ingraham@f1000.com

Conventional publishing Model

F1000research publishing Model

Enabling early access to results

Pre-print server OA JournalEarly access to results & data Editorial input

Precedence for authors Peer review & indexing

Multiple versions Publication ethics

No Editor in Chief Perfected paper OA

Open peer review

Decision based on scientific soundness

Versioning

Versioning

Publishing data & code

publishing raw data and source code

Uses •Exploratory analyses, LOD, reproducibility checks (data, reanalyses + software)

Linking with Research Articles

•Better metadata/documentation

•Quality control

Software Tool Articles & Data Articles•Big/small datasets – no analyses

•Software packages/web tools

•Even better metadata/documentation

•Versioning – updates & point releases

•High visibility

•More credit (quantity and quality)

Requirements for data and code

Interoperable formats

Metadata

All?

Workflow & repositories

Submission

Pre-Pub Check Publish Peer

review

Repository

Crosslink

Further requests

F1000Research curates approved

repo list

Credit for data and software

Data availability:

Repository: Data entry title, PID [Ref]

[Ref] Author Names. Data entry title [v]. Repository. Year. PID

Cite the data or the Data Article?

Clear accessibility info and actively encourage data/software citation

Software availability:

Software access (opt): URL

Latest source code (opt): VCS URL

Archived entry: Repository: Software title, PID [Ref]

Licence: OSI

[Ref] Author Names. Software title [v]. Repository. Year. PID

INTERGRATION, VISUALIZATION & ANALYSIS OF DATA

Living figures: Data + Code

Colomb & Brembs: http://f1000research.com/articles/3-176/v1

Challenges

Sensitive data

•Protected repositories

•HIPPA-compliant (safe harbour)

•DataSHIELD

Other challenges

•Rawness & granularity

Jisc Bodleian 1-click data submission Project

Reducing the friction data sharing

SUMMARY: F1000RESEARCH’S APPROACH TO OPEN SCIENCE

• Near-immediate publicationOpen, invited peer review conducted after publication

• Transparent peer-reviewSigned referee reports and author responses published alongside each article

• No editorial biasPublication of all findings, including null results, software tools and data notes.

• Data includedAll research articles accompanied by the data on which they are based

ANNOTATOR PLUGIN

PREDICTS CITATIONS

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