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Datastorr: a workflow and package for delivering successive versions of 'evolving data' directly into R
The sharing and re-use of data has become a cornerstone of modern science. Multiple platforms now allow easy publication of datasets. So far, however, platforms for data sharing offer limited functions for distributing and interacting with evolving datasets— those that continue to grow with time as...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6506717/ https://www.ncbi.nlm.nih.gov/pubmed/31042286 http://dx.doi.org/10.1093/gigascience/giz035 |
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author | Falster, Daniel S FitzJohn, Richard G Pennell, Matthew W Cornwell, William K |
author_facet | Falster, Daniel S FitzJohn, Richard G Pennell, Matthew W Cornwell, William K |
author_sort | Falster, Daniel S |
collection | PubMed |
description | The sharing and re-use of data has become a cornerstone of modern science. Multiple platforms now allow easy publication of datasets. So far, however, platforms for data sharing offer limited functions for distributing and interacting with evolving datasets— those that continue to grow with time as more records are added, errors fixed, and new data structures are created. In this article, we describe a workflow for maintaining and distributing successive versions of an evolving dataset, allowing users to retrieve and load different versions directly into the R platform. Our workflow utilizes tools and platforms used for development and distribution of successive versions of an open source software program, including version control, GitHub, and semantic versioning, and applies these to the analogous process of developing successive versions of an open source dataset. Moreover, we argue that this model allows for individual research groups to achieve a dynamic and versioned model of data delivery at no cost. |
format | Online Article Text |
id | pubmed-6506717 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-65067172019-05-13 Datastorr: a workflow and package for delivering successive versions of 'evolving data' directly into R Falster, Daniel S FitzJohn, Richard G Pennell, Matthew W Cornwell, William K Gigascience Technical Note The sharing and re-use of data has become a cornerstone of modern science. Multiple platforms now allow easy publication of datasets. So far, however, platforms for data sharing offer limited functions for distributing and interacting with evolving datasets— those that continue to grow with time as more records are added, errors fixed, and new data structures are created. In this article, we describe a workflow for maintaining and distributing successive versions of an evolving dataset, allowing users to retrieve and load different versions directly into the R platform. Our workflow utilizes tools and platforms used for development and distribution of successive versions of an open source software program, including version control, GitHub, and semantic versioning, and applies these to the analogous process of developing successive versions of an open source dataset. Moreover, we argue that this model allows for individual research groups to achieve a dynamic and versioned model of data delivery at no cost. Oxford University Press 2019-05-01 /pmc/articles/PMC6506717/ /pubmed/31042286 http://dx.doi.org/10.1093/gigascience/giz035 Text en © The Author(s) 2019. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Technical Note Falster, Daniel S FitzJohn, Richard G Pennell, Matthew W Cornwell, William K Datastorr: a workflow and package for delivering successive versions of 'evolving data' directly into R |
title | Datastorr: a workflow and package for delivering successive versions of 'evolving data' directly into R |
title_full | Datastorr: a workflow and package for delivering successive versions of 'evolving data' directly into R |
title_fullStr | Datastorr: a workflow and package for delivering successive versions of 'evolving data' directly into R |
title_full_unstemmed | Datastorr: a workflow and package for delivering successive versions of 'evolving data' directly into R |
title_short | Datastorr: a workflow and package for delivering successive versions of 'evolving data' directly into R |
title_sort | datastorr: a workflow and package for delivering successive versions of 'evolving data' directly into r |
topic | Technical Note |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6506717/ https://www.ncbi.nlm.nih.gov/pubmed/31042286 http://dx.doi.org/10.1093/gigascience/giz035 |
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