Managing & sharing your data and code for openness

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Phoebe Ayers

Brief talk for April 6 symposium, Open Source for Science + Innovation, Boston MA https://opensource.org/node/859

Educação

Managing & sharing your
data and code for openness
Phoebe Ayers
MIT Libraries
April 6, 2017

Carly Strasser, 2014 AGU Early Career Conference
https://www.slideshare.net/carlystrasser/data-matters-for-agu-early-career-conference

Nature doi:10.1038/nature.2015.18248; Nature
Human Behavior doi:10.1038/s41562-016-0021;
https://en.wikipedia.org/wiki/Replication_crisis

PloS Computational Biology,
doi:10.1371/journal.pcbi.1003285
Nature 533,452–454 (26 May 2016)
doi:10.1038/533452a

Open, reproducible science rests on
open data, methods & code
Online data ≠ reproducible, usable data

5 quick ways to make your work more open

1. Make a plan
Center for Open Science, cos.io
Data Management Planning Tool, dmptool.org

2. Organize & make a file naming scheme
sam_monarch_wing_20160115_CM_001.tif
[instrument]_[item]_[date]_[collector]_[ascension#].ext
/ butterfly / images /
cmalin / 20160115 sd27743.sam
Thanks to Christine Malinowski, MIT Libraries

3. Document, document, document
• .README
• Comments
• Codebooks
• Lab manuals
• Data &
software
papers
• Extended
Methods
MIMIC dataset https://mimic.physionet.org/mimicdata/time/

4. Deposit in a repository
Zenodo.org, dataverse.Harvard.edu, figshare.com

5. Make it citable
• Get a DOI (via a repository)
• Archive your GitHub repos
• Pack up your environment
& dependencies (eg, reprozip.org,
Reproducible builds)
• Publish a data paper
• Publish a software paper
• Publish a manual
• Include a .CITATION file
• Give appropriate credit to contributors
https://guides.github.com/activities/citable-code/

Resources
• MIT Libraries data management team:
• http://libraries.mit.edu/data-management
• Software Sustainability Institute: http://software.ac.uk/
• FORCE11: https://www.force11.org/
• Open Knowledge Int’l: https://okfn.org/
Phoebe Ayers: psayers@mit.edu
This presentation
is licensed under a
Creative Commons
Attribution 4.0
International
License.

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Managing & sharing your data and code for openness

1. Managing & sharing your data and code for openness Phoebe Ayers MIT Libraries April 6, 2017

2. Data therapy

3. https://xkcd.com/1459/

4. Carly Strasser, 2014 AGU Early Career Conference https://www.slideshare.net/carlystrasser/data-matters-for-agu-early-career-conference

5. http://phdcomics.com/comics.php?f=1531

6. So what?

7. Nature doi:10.1038/nature.2015.18248; Nature Human Behavior doi:10.1038/s41562-016-0021; https://en.wikipedia.org/wiki/Replication_crisis

8. PloS Computational Biology, doi:10.1371/journal.pcbi.1003285 Nature 533,452–454 (26 May 2016) doi:10.1038/533452a

9. Open, reproducible science rests on open data, methods & code Online data ≠ reproducible, usable data

10. 5 quick ways to make your work more open

11. 1. Make a plan Center for Open Science, cos.io Data Management Planning Tool, dmptool.org

12. 2. Organize & make a file naming scheme sam_monarch_wing_20160115_CM_001.tif [instrument]_[item]_[date]_[collector]_[ascension#].ext / butterfly / images / cmalin / 20160115 sd27743.sam Thanks to Christine Malinowski, MIT Libraries

13. 3. Document, document, document • .README • Comments • Codebooks • Lab manuals • Data & software papers • Extended Methods MIMIC dataset https://mimic.physionet.org/mimicdata/time/

14. 4. Deposit in a repository Zenodo.org, dataverse.Harvard.edu, figshare.com

15. 5. Make it citable • Get a DOI (via a repository) • Archive your GitHub repos • Pack up your environment & dependencies (eg, reprozip.org, Reproducible builds) • Publish a data paper • Publish a software paper • Publish a manual • Include a .CITATION file • Give appropriate credit to contributors https://guides.github.com/activities/citable-code/

16. Resources • MIT Libraries data management team: • http://libraries.mit.edu/data-management • Software Sustainability Institute: http://software.ac.uk/ • FORCE11: https://www.force11.org/ • Open Knowledge Int’l: https://okfn.org/ Phoebe Ayers: psayers@mit.edu This presentation is licensed under a Creative Commons Attribution 4.0 International License.

Notas do Editor

As Carly notes: didn’t share the data, didn’t document the metadata, didn’t document provenance & workflow

Managing & sharing your data and code for openness

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