Étiquette : open science

Publié le

Open science-based framework to reveal open data publishing: an experience from using Common Crawl

Authors : Andreiwid Correa, Israel Fernandes

The publishing of open data is considered a key element for civic participation paving the way to the ‘public value’, a term which underpins the social contribution. A result of that can be seen through the popularity of data portals published all around the world by governments, public and private organizations.

However, the diffusion of data portals raises concerns about discoverability and validity of these data sources, especially to what extent they contribute to open data and open science.

The purpose of this work is to develop a framework to reveal open data publishing with the use of a freely available open science project called Common Crawl. The idea is to identify open data-related initiatives and to gather information about their availability, having in the framework’s essence an iterative and differential process.

The main outcome is shown through a proposed model for the historical data repository which involves both use and creation of open science to branch new sort of research possibilities based on publishing of derived data.

URL : https://hal.archives-ouvertes.fr/hal-02544245

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Penser local. Développer une politique de données sur un campus SHS

Auteur/Author : Joachim Schöpfel

Dans le cadre du Plan national pour la science ouverte, la structuration et le partage des données de recherche font désormais partie des priorités de la politique scientifique de la France.

Chaque établissement et chaque organisme scientifique doit se doter d’une politique de la science ouverte et mettre en place un ensemble de services et dispositifs pour la gestion des données de la recherche.

A partir d’enquêtes sur le terrain, l’article propose une feuille de route pour la mise en œuvre d’une telle politique sur un campus universitaire en sciences humaines et sociales.

Dix principes indiquent des pistes pour la gouvernance et le pilotage de cette politique, pour déterminer les priorités de développement et d’investissements, et pour faire le lien avec les infrastructures de recherche, dont notamment Huma-Num.

Il s’agit d’une démarche bottom-up, qui met l’accent sur les pratiques et besoins des chercheurs et qui place les chercheurs au cœur d’une politique institutionnelle dans le domaine des données de recherche.

URL : https://www.openscience.fr/Penser-local

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Publishing computational research — A review of infrastructures for reproducible and transparent scholarly communication

Authors : Markus Konkol, Daniel Nüst, Laura Goulier

Funding agencies increasingly ask applicants to include data and software management plans into proposals. In addition, the author guidelines of scientific journals and conferences more often include a statement on data availability, and some reviewers reject unreproducible submissions.

This trend towards open science increases the pressure on authors to provide access to the source code and data underlying the computational results in their scientific papers.

Still, publishing reproducible articles is a demanding task and not achieved simply by providing access to code scripts and data files. Consequently, several projects develop solutions to support the publication of executable analyses alongside articles considering the needs of the aforementioned stakeholders.

The key contribution of this paper is a review of applications addressing the issue of publishing executable computational research results. We compare the approaches across properties relevant for the involved stakeholders, e.g., provided features and deployment options, and also critically discuss trends and limitations.

The review can support publishers to decide which system to integrate into their submission process, editors to recommend tools for researchers, and authors of scientific papers to adhere to reproducibility principles.

URL : https://arxiv.org/abs/2001.00484

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Open forensic science

Authors : Jason M Chin, Gianni Ribeiro, Alicia Rairden

The mainstream sciences are experiencing a revolution of methodology. This revolution was inspired, in part, by the realization that a surprising number of findings in the bioscientific literature could not be replicated or reproduced by independent laboratories.

In response, scientific norms and practices are rapidly moving towards openness. These reforms promise many enhancements to the scientific process, notably improved efficiency and reliability of findings. Changes are also underway in the forensic.

After years of legal-scientific criticism and several reports from peak scientific bodies, efforts are underway to establish the validity of several forensic practices and ensure forensic scientists perform and present their work in a scientifically valid way.

In this article, the authors suggest that open science reforms are distinctively suited to addressing the problems faced by forensic science. Openness comports with legal and criminal justice values, helping ensure expert forensic evidence is more reliable and susceptible to rational evaluation by the trier of fact.

In short, open forensic science allows parties in legal proceedings to understand and assess the strength of the case against them, resulting in fairer outcomes. Moreover, several emerging open science initiatives allow for speedier and more collaborative research.

URL : Open forensic science

DOI : https://doi.org/10.1093/jlb/lsz009

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Thought Experiment on the Impact of Plan S on non-Plan S countries and Japan

Author : Miho Funamori

In September 2018, a consortium of eleven European research funding agencies known as cOAlition S announced “Plan S,” which requires full and immediate Open Access to all research publications stemming from projects funded by the agencies.

The goal of making research output openly available to all has been generally welcomed; however, the strict requirements of Plan S, which take effect on January 1, 2020, have drawn criticisms from various stakeholders. Researchers from affected countries considered it a violation of their academic freedom, as they will be forced to publish only in conforming journals.

Publishers, especially those publishing high profile journals, claim that it will be impossible to sustain their business if forced to convert to Open Access journals and to rely solely on article processing charges. Institutions operating their own Open Access platforms or Open Access repositories view the requirements as well-intended but difficult to meet.

Despite the turmoil, little has been heard from non-Plan S countries, especially from non-English speaking countries outside Europe. There have been scarcely any comments or analyses relating to the impact of Plan S on these non-Plan S countries.

This paper aims to fill the gap with a thought experiment on the impact of Plan S requirements on various stakeholders in these non-Plan S countries. The analysis concludes that non-Plan S countries are indirectly affected by Plan S by being forced to adapt to the world standard that Plan S sets forth.

As many non-Plan S countries lack support for this transition from their respective funding agencies, they will be seriously disadvantaged to adapt to the new standards. The article processing charge for publishing in Open Access journals and the strict requirements for Open Access platforms could suppress research output from non-Plan S countries and reduce their research competitiveness.

Local publishers, whose financial position in many cases is already precarious, may be forced to shut down or merge with larger commercial publishers. As scholarly communication is globally interconnected, the author argues the need to consider the impact of Plan S on non-Plan S countries and explore alternative ways for realizing full and immediate OA by learning from local practices.

This analysis uses Japan as an exemplar of non-Plan S countries. Its distinctiveness is specified where applicable.

URL : https://www.semanticscholar.org/paper/Thought-Experiment-on-the-Impact-of-Plan-S-on-S-and-Funamori/f5c702b7f98ceec54f9409a693802c9c0a971ef2

Publié le

Transparent, Reproducible, and Open Science Practices of Published Literature in Dermatology Journals: Cross-Sectional Analysis

Authors : J Michael Anderson, Andrew Niemann, Austin L Johnson, Courtney Cook, Daniel Tritz, Matt Vassar

Background

Reproducible research is a foundational component for scientific advancements, yet little is known regarding the extent of reproducible research within the dermatology literature.

Objective

This study aimed to determine the quality and transparency of the literature in dermatology journals by evaluating for the presence of 8 indicators of reproducible and transparent research practices.

Methods

By implementing a cross-sectional study design, we conducted an advanced search of publications in dermatology journals from the National Library of Medicine catalog. Our search included articles published between January 1, 2014, and December 31, 2018.

After generating a list of eligible dermatology publications, we then searched for full text PDF versions by using Open Access Button, Google Scholar, and PubMed. Publications were analyzed for 8 indicators of reproducibility and transparency—availability of materials, data, analysis scripts, protocol, preregistration, conflict of interest statement, funding statement, and open access—using a pilot-tested Google Form.

Results

After exclusion, 127 studies with empirical data were included in our analysis. Certain indicators were more poorly reported than others. We found that most publications (113, 88.9%) did not provide unmodified, raw data used to make computations, 124 (97.6%) failed to make the complete protocol available, and 126 (99.2%) did not include step-by-step analysis scripts.

Conclusions

Our sample of studies published in dermatology journals do not appear to include sufficient detail to be accurately and successfully reproduced in their entirety. Solutions to increase the quality, reproducibility, and transparency of dermatology research are warranted.

More robust reporting of key methodological details, open data sharing, and stricter standards journals impose on authors regarding disclosure of study materials might help to better the climate of reproducible research in dermatology.

URL : Transparent, Reproducible, and Open Science Practices of Published Literature in Dermatology Journals: Cross-Sectional Analysis

DOI : https://doi.org/10.2196/16078