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Good enough practices in scientific computing

Computers are now essential in all branches of science, but most researchers are never taught the equivalent of basic lab skills for research computing. As a result, data can get lost, analyses can take much longer than necessary, and researchers are limited in how effectively they can work with sof...

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Autores principales: Wilson, Greg, Bryan, Jennifer, Cranston, Karen, Kitzes, Justin, Nederbragt, Lex, Teal, Tracy K.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5480810/
https://www.ncbi.nlm.nih.gov/pubmed/28640806
http://dx.doi.org/10.1371/journal.pcbi.1005510
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author Wilson, Greg
Bryan, Jennifer
Cranston, Karen
Kitzes, Justin
Nederbragt, Lex
Teal, Tracy K.
author_facet Wilson, Greg
Bryan, Jennifer
Cranston, Karen
Kitzes, Justin
Nederbragt, Lex
Teal, Tracy K.
author_sort Wilson, Greg
collection PubMed
description Computers are now essential in all branches of science, but most researchers are never taught the equivalent of basic lab skills for research computing. As a result, data can get lost, analyses can take much longer than necessary, and researchers are limited in how effectively they can work with software and data. Computing workflows need to follow the same practices as lab projects and notebooks, with organized data, documented steps, and the project structured for reproducibility, but researchers new to computing often don't know where to start. This paper presents a set of good computing practices that every researcher can adopt, regardless of their current level of computational skill. These practices, which encompass data management, programming, collaborating with colleagues, organizing projects, tracking work, and writing manuscripts, are drawn from a wide variety of published sources from our daily lives and from our work with volunteer organizations that have delivered workshops to over 11,000 people since 2010.
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spelling pubmed-54808102017-07-05 Good enough practices in scientific computing Wilson, Greg Bryan, Jennifer Cranston, Karen Kitzes, Justin Nederbragt, Lex Teal, Tracy K. PLoS Comput Biol Perspective Computers are now essential in all branches of science, but most researchers are never taught the equivalent of basic lab skills for research computing. As a result, data can get lost, analyses can take much longer than necessary, and researchers are limited in how effectively they can work with software and data. Computing workflows need to follow the same practices as lab projects and notebooks, with organized data, documented steps, and the project structured for reproducibility, but researchers new to computing often don't know where to start. This paper presents a set of good computing practices that every researcher can adopt, regardless of their current level of computational skill. These practices, which encompass data management, programming, collaborating with colleagues, organizing projects, tracking work, and writing manuscripts, are drawn from a wide variety of published sources from our daily lives and from our work with volunteer organizations that have delivered workshops to over 11,000 people since 2010. Public Library of Science 2017-06-22 /pmc/articles/PMC5480810/ /pubmed/28640806 http://dx.doi.org/10.1371/journal.pcbi.1005510 Text en © 2017 Wilson et al 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 use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Perspective
Wilson, Greg
Bryan, Jennifer
Cranston, Karen
Kitzes, Justin
Nederbragt, Lex
Teal, Tracy K.
Good enough practices in scientific computing
title Good enough practices in scientific computing
title_full Good enough practices in scientific computing
title_fullStr Good enough practices in scientific computing
title_full_unstemmed Good enough practices in scientific computing
title_short Good enough practices in scientific computing
title_sort good enough practices in scientific computing
topic Perspective
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5480810/
https://www.ncbi.nlm.nih.gov/pubmed/28640806
http://dx.doi.org/10.1371/journal.pcbi.1005510
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