collaborative data management using osf

Collaborative data management using OSF

Tobin MagleData Management Specialist

Morgan Library12-07-2016

http://www.slideshare.net/CTobinMagle/collaborative-data-management-using-osf

Outline

• Intro to data management services

• What is data management?• Why should I care?

• Data Management Planning

• Collaboration tool: Open Science Framework

My Background: molecular microbiology

(1) CT Magle et al Infect Immun. 2014 Feb;82(2):618-25. doi: 10.1128/IAI.00444-13. Epub 2013 Nov 25.(2) Sun W, Tanaka TQ, Magle CT, et al.. Sci Rep. 2014 Jan 17;4:3743. doi: 10.1038/srep03743.

Workshops

One on one meetings

• How do I write a DMP?

• How do I organize my data?

• How do I clean and format my data?

• How do I automate my analyses?

• How do I get my data ready to share?

Data archiving service

• CSU Digital Repository• Over 100 Datasets

• Satisfy requirements for manuscripts and grants

• At no cost <1 TB• $150/TB for 5 years• $300/TB for >5 years

Data Management Serviceshttps://lib.colostate.edu/services/data-management

What is data management?

The policies, practices and procedures needed to manage the storage, access and preservation of data

produced from a research project

data management != data sharing

Collaboration

Why should I care?• Good for research integrity

• Good for you

• Public good

• Collaboration is hard

Full lecture by Keith Baggerly, Bioinformatician (University of Texas, MD Anderson Cancer Center)https://www.youtube.com/watch?v=7gYIs7uYbMo

http://www.nytimes.com/2011/07/08/health/research/08genes.html

Where does data management fit into research?

Throughout the whole research cycle

Hypothesis

The research cycle

Hypothesis Experimental design

The research cycle

Hypothesis DataExperimental design

The research cycle

Hypothesis DataExperimental design

Results

The research cycle

Hypothesis DataExperimental design

ResultsArticle

The research cycle

Hypothesis DataExperimental design

ResultsArticle

The research cycle

Hypothesis DataExperimental design

ResultsArticle

Data Management Plans

The research cycle

HypothesisRaw data

Experimental design

Tidy Data

ResultsArticle

Data Management Plans

Cleaning

Analysis

The research cycle

HypothesisRaw data

Experimental design

Tidy Data

ResultsArticle

Data Management Plans

Cleaning

Sharing

Analysis

Open Data

ClosedData

Archiving

The research cycle

HypothesisRaw data

Experimental design

Tidy Data

ResultsArticle

Data Management Plans

Cleaning

Sharing

Analysis

Open Data

Code Reproducible Research

ClosedData

Archiving

The research cycle

HypothesisRaw data

Experimental design

Tidy Data

ResultsArticle

Data Management Plans

Cleaning

Sharing

Analysis

Open Data

Code Reproducible Research

Reuse

ClosedData

Archiving

The research cycle

HypothesisRaw data

Experimental design

Tidy Data

ResultsArticle

Data Management Plans

Cleaning

Sharing

Analysis

Open Data

Code Reproducible ResearchReuse

ClosedData

Archiving

The research cycle

Version Control

Metadata

Collaboration

What is a data management plan?

• A description of how you plan to describe, preserve and share your research data.

• Often required by funders

• Collaboration takes extra planning

Successful DMPs include

• A data inventory

• A strategy for describing the data

• A plan for preserving the data

• A method for access to the data

http://help.osf.io/m/60347/l/618674-creating-a-data-management-plan-dmp

Successful collaborative DMPs include• A data inventory

• A strategy for describing the data

• A plan for preserving the data

• A method for access to the data

http://help.osf.io/m/60347/l/618674-creating-a-data-management-plan-dmp

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3143734

• Assigned Roles

• Shared work space

• Context

• Version control

Shared workspace: OSF

• Components

• Add-ons

• Contributors

• Wiki

http://help.osf.io/m/collaborating/l/524109-using-the-wiki http://www.slideshare.net/DuraSpace/121014-slides-roadmap-to-the-future-of-share

Organization rules

• Be consistent

• One directory per project

• Separate subdirectories for• Raw data• Processed data• Code• Output

• Make raw data read-only

• Make README fileshttp://help.osf.io/m/60347/l/611391-organizing-files

Components

• “Subprojects”

• Separate privacy settings, contributors, wiki, add-ons, and files.

• Examples:• Different projects: https://osf.io/82fba/• Clinical: https://osf.io/gq4mz/• Mix: https://osf.io/ezcuj/• File types: https://osf.io/if7ug/• Manuscript sections:

https://osf.io/zmja2/

Demo: add files and components

Add ons

Now

OSF

OpenSesame

Soon

OSF

29 grants to develop open tools and services: https://cos.io/pr/2015-09-24/

Demo: Link add ons

Context: Wiki

• Evolves during project

• Describe the project

• Goals

• Progress report

• Code book:• ID systems (for records)• Variable systems

Contributors

• Control who can see what• Administrator

• Read/Write

• Read only

• Separate for each component

Demo: Add contributor

Version control

• Who did what when?• Native in OSF

• Git Integration

• One file name, many versions

Demo: version history

Need help?

• Email: tobin.magle@colostate.edu

• DMPTool: http://dmptool.org/

• OSF: https://osf.io/

• Data Management Services website: http://lib.colostate.edu/services/data-management

• Slides: http://www.slideshare.net/CTobinMagle/collaborative-data-management-using-osf