The trend toward open science increases the pressure on authors to provide access to the source code and data they used to compute the results reported in their scientific papers. Since sharing materials reproducibly is challenging, several projects have developed solutions to support the release of executable analyses alongside articles. We reviewed 11 applications that can assist researchers in adhering to reproducibility principles. The applications were found through a literature search and interactions with the reproducible research community. An application was included in our analysis if it was actively maintained at the time the data for this paper was collected, supports the publication of executable code and data, is connected to the scholarly publication process. By investigating the software documentation and published articles, we compared the applications across 19 criteria, e.g. features that support authors in creating and readers in studying executable papers. From the 11 applications, eight allow publishers to self-host the system for free, whereas three provide paid services. Authors can submit an executable analysis using Jupyter Notebooks or R Markdown documents (10 applications support these formats). All approaches provide features to assist readers in studying the materials, e.g., one-click reproducible results or tools for manipulating the analysis parameters. Six applications allow for modifying materials after publication. The applications support authors to publish reproducible research predominantly with literate programming. Concerning readers, most applications provide user interfaces to inspect and manipulate the computational analysis.
While the business models used in most segments of the media industry have been profoundly changed by the Internet surprisingly little has been changed in the publishing of scholarly peer reviewed journals. Electronic delivery has become the norm, but the same publishers as before are dominating the market, selling content to subscribers. This article asks the question why Open Access (OA) to the output of mainly publicly funded research hasn't yet become the mainstream business model. OA implies a reversal of business logic from readers paying for content to authors paying fro dissemination v…
The author's productivity is assessed based on publications, which requires a lot of motivation and time. Manuscripts get through several steps before being accepted and published. The purpose of this paper is to understand the time gap between acceptance to the publication of manuscripts in reputed journals of Library and Information Science. This paper is useful to contemporary researchers for knowing the journal publication duration. In this paper, we discussed the refereed and index journals in the field of library and information science. For this study, we collected the data from six LIS…
This study examines whether there is any evidence of bias in two areas of common critique of open, non-anonymous peer review - and used in the post-publication, peer review system operated by the open-access scholarly publishing platform F1000Research. First, is there evidence of bias where a reviewer based in a specific country assesses the work of an author also based in the same country? Second, are reviewers influenced by being able to see the comments and know the origins of previous reviewer? Methods: Scrutinising the open peer review comments published on F1000Research, we assess the ex…
The chapter tackles the role of scholarly publication in the research process (quality, preservation) and looks at the consequences of new information technologies in the organization of the scholarly communication ecology. It will then show how new technologies have had an impact on the scholarly communication process and made it depart from the traditional publishing environment. Developments will address new editorial processes, dissemination of new content and services, as well as the development of publication archives. This last aspect will be covered on all levels (open access, scientif…
Digital advancement in scholarly repositories has led to the emergence of a large number of open access predatory publishers that charge high article processing fees from authors but fail to provide necessary editorial and publishing services. Identifying and blacklisting such publishers has remained a research challenge due to the highly volatile scholarly publishing ecosystem. This paper presents a data-driven approach to study how potential predatory publishers are evolving and bypassing several regularity constraints. We empirically show the close resemblance of predatory publishers agains…
Stakeholders in research and scientific publishing are gradually joining the Open-Access (OA) movement, which is gaining momentum to become nowadays at the heart of scientific policies in high-income countries. The rise of OA generates profound changes in the chain of production and dissemination of knowledge. Free access to peer-reviewed research methods and results has contributed to the dynamics of science observed in recent years. The modes of publication and access have also evolved; the classic model, based on journal subscriptions is gradually giving way to new economic models that have…
CERN, the European Organization for Nuclear Research, has operated an institutional preprint repository for more than 10 years. The repository contains over 850,000 records of which more than 450,000 are full-text OA preprints, mostly in the field of particle physics, and it is integrated with the library's holdings of books, conference proceedings, journals and other grey literature. In order to encourage effective propagation and open access to scholarly material, CERN is implementing a range of innovative library services into its document repository: automatic keywording, reference extract…
Numerous national research assessment policies set the goal of promoting "excellence" and incentivise scholars to publish their research in the most prestigious journals or with the most prestigious book publishers. We investigate the practicalities of the assessment of book outputs based on the prestige of book publishers (Denmark, Finland, Flanders, Lithuania, Norway). Additionally, we test whether such judgments are transparent and yield consistent results. We show inconsistencies in the levelling of publishers, such as the same publisher being ranked as prestigious and not-so-prestigious i…
This paper aims to gain a better understanding of the perspectives of contributors to Spanish academic journals regarding open access, open peer review, and altmetrics. It also explores how age, gender, professional experience, career history, and perception and use of social media influence authors opinions toward these developments in scholarly publishing. A sample of contributors (n-1254) to Spanish academic journals was invited to participate in a survey about the aforementioned topics. The response rate was 24 per cent (n-295). Contributors to Spanish scholarly journals hold a favourable …
We leverage the Open Research Knowledge Graph - a scholarly infrastructure that supports the creation, curation, and reuse of structured, semantic scholarly knowledge - and present an approach for persistent identification of FAIR scholarly knowledge. We propose a DOI-based persistent identification of ORKG Papers, which are machine-actionable descriptions of the essential information published in scholarly articles. This enables the citability of FAIR scholarly knowledge and its discovery in global scholarly communication infrastructures (e.g., DataCite, OpenAIRE, and ORCID). While publishing…
With the advent of Open Science, researchers have started to publish their research artefacts (i. e., data, software, and other products of the investigations) in order to allow others to reproduce their investigations. While this publication is beneficial for science in general, it often lacks a comprehensive documentation and completeness with respect to the artefacts. This, in turn, prevents the successful reproduction of the analyses. Typical examples are missing scripts, incomplete datasets or specification of used software. Moreover, issues about licences often create legal concerns. Thi…
Because the Impact Factor (IF) is an average quantity and most journals are small, IFs are volatile. We study how a single paper affects the IF using data from 11639 journals in the 2017 Journal Citation Reports. We define as volatility the IF gain (or loss) caused by a single paper, and this is inversely proportional to journal size. We find high volatilities for hundreds of journals annually due to their top-cited paper: whether it is a highly-cited paper in a small journal, or a moderately (or even low) cited paper in a small and low-cited journal. For example, 1218 journals had their most …
In this transformative world, changes are happening in all the fields, including scholarly communications are trending in the academic area of publication and access to the resources, especially emerging the wave of open access, open science and open research. The study aims to investigate the digital publishing behaviour of manuscript authors. This study applied a quantitative approach and survey questionnaire method. The researcher collected the data from 251 authors, editors, and peer-reviewers from 45 countries worldwide. The research mainly focuses on the importance, need, and author pref…
Reviewing scientific literature is a cumbersome, time consuming but crucial activity in research. Leveraging a scholarly knowledge graph, we present a methodology and a system for comparing scholarly literature, in particular research contributions describing the addressed problem, utilized materials, employed methods and yielded results. The system can be used by researchers to quickly get familiar with existing work in a specific research domain (e.g., a concrete research question or hypothesis). Additionally, it can be used to publish literature surveys following the FAIR Data Principles. T…
Linked Open Datasets about scholarly publications enable the development and integration of sophisticated end-user services; however, richer datasets are still needed. The first goal of this Challenge was to investigate novel approaches to obtain such semantic data. In particular, we were seeking methods and tools to extract information from scholarly publications, to publish it as LOD, and to use queries over this LOD to assess quality. This year we focused on the quality of workshop proceedings, and of journal articles w.r.t. their citation network. A third, open task, asked to showcase how …
Scholarly communication is today immersed in publish or perish culture that propels noncooperative behaviour in the sense of strategic games played by researchers. Here we introduce and describe a blockchain based platform for decentralized scholarly communication. The design of the platform rests on community driven publishing reviewing processes and implements incentives that promote cooperative user behaviour. Key to achieve cooperation in blockchain based scholarly communication is to transform a static research paper into a modifiable research paper under continuous peer review process. W…
In this article, we focus on the importance of open research information as the foundation for transparent and responsible research assessment and discovery of research outputs. We introduce work in which we support the open research information commons by enabling, in particular, independent and small Open Access journals to provide metadata to several open data hubs (Open Citations, Wikidata, Open Research Knowledge Graph). In this context, we present The OPTIMETA Way, a means to integrate metadata collection, enrichment, and distribution in an effective and quality-ensured way that enables …
The OSCOSS project (Opening Scholarly Communication in Social Sciences), which will be outlined, aims at providing integrated support for all steps of the scholarly communication process. Incl. collaborative writing of a scientific paper, collecting data related to existing publications, interpreting and including data in a paper, submitting the paper for peer review, reviewing the paper, publishing an article, and, finally, facilitating its consumption by readers. The OSCOSS project will support this process considering in particular the perspective of three main actors detailed in the use ca…
In this study we analyse the key driving factors of preprints in enhancing scholarly communication. To this end we use four groups of metrics, one referring to scholarly communication and based on bibliometric indicators (Web of Science and Scopus citations), while the others reflect usage (usage counts in Web of Science), capture (Mendeley readers) and social media attention (Tweets). Hereby we measure two effects associated with preprint publishing: publication delay and impact. We define and use several indicators to assess the impact of journal articles with previous preprint versions in a…
Open Science, Reproducible Research, Findable, Accessible, Interoperable and Reusable (FAIR) data principles are long term goals for scientific dissemination. However, the implementation of these principles calls for a reinspection of our means of dissemination. In our viewpoint, we discuss and advocate, in the context of nonlinear science, how a notebook article represents an essential step toward this objective by fully embracing cloud computing solutions. Notebook articles as scholar articles offer an alternative, efficient and more ethical way to disseminate research through their versatil…
The ever-growing number of venues publishing academic work makes it difficult for researchers to identify venues that publish data and research most in line with their scholarly interests. A solution is needed, therefore, whereby researchers can identify information dissemination pathways in order to both access and contribute to an existing body of knowledge. In this study, we present a system to recommend scholarly venues rated in terms of relevance to a given researcher's current scholarly pursuits and interests. We collected our data from an academic social network and modeled researchers'…
Review articles are a means to structure state-of-the-art literature and to organize the growing number of scholarly publications. However, review articles are suffering from numerous limitations, weakening the impact the articles could potentially have. A key limitation is the inability of machines to access and process knowledge presented within review articles. In this work, we present SmartReviews, a review authoring and publishing tool, specifically addressing the limitations of review articles. The tool enables community-based authoring of living articles, leveraging a scholarly knowledg…
Reproducibility is an important feature of science; experiments are retested, and analyses are repeated. Trust in the findings increases when consistent results are achieved. Despite the importance of reproducibility, significant work is often involved in these efforts, and some published findings may not be reproducible due to oversights or errors. In this paper, we examine a myriad of features in scholarly articles published in computer science conferences and journals and test how they correlate with reproducibility. We collected data from three different sources that labeled publications a…
Visualization of the massive data is a challenging endeavor. Extracting data and providing graphical representations can aid in its effective utilization in terms of interpretation and knowledge discovery. Publishing research articles has become a way of life for academicians. The scholarly publications can shape-up the professional growth of authors and also expand the research and technological growth of a country, continent and other demographic regions. Scholarly articles have grown in gigantic numbers that are published in different domains by various journals. Information related to arti…
New thinking needs to emerge about how to reform publishing along lines that best meet two perennial needs of scientific communication. This paper discusses a model that addresses these two needs with respect to physics. Given the considerable barriers that its realization in pristine form faces, the model aspires merely to be a heuristic or guidepost. It provides an analytical framework for criticizing aspects of the current publishing ecosystem, helps diagnose problems in current efforts to reform it, including those emanating from the open access movement, and raises consciousness about cer…
An exploratory, descriptive analysis is presented of the national orientation of scientific, scholarly journals as reflected in the affiliations of publishing or citing authors. It calculates for journals covered in Scopus an Index of National Orientation (INO), and analyses the distribution of INO values across disciplines and countries, and the correlation between INO values and journal impact factors. The study did not find solid evidence that journal impact factors are good measures of journal internationality in terms of the geographical distribution of publishing or citing authors, as th…
Our cultural discourse is increasingly carried in the web. With the initial emergence of the web many years ago, there was a period where conventional mediums (e.g., music, movies, books, scholarly publications) were primary and the web was a supplementary channel. This has now changed, where the web is often the primary channel, and other publishing mechanisms, if present at all, supplement the web. Unfortunately, the technology for publishing information on the web always outstrips our technology for preservation. My concern is less that we will lose data of known importance (e.g., scientifi…
We present the problem of finding comparable researchers for any given researcher. This problem has many motivations. Firstly, know thyself. The answers of where we stand among research community and who we are most alike may not be easily found by existing evaluations of ones' research mainly based on citation counts. Secondly, there are many situations where one needs to find comparable researchers e.g., for reviewing peers, constructing programming committees or compiling teams for grants. It is often done through an ad hoc and informal basis. Utilizing the large scale scholarly data access…
Nanopublications are a Linked Data format for scholarly data publishing that has received considerable uptake in the last few years. In contrast to the common Linked Data publishing practice, nanopublications work at the granular level of atomic information snippets and provide a consistent container format to attach provenance and metadata at this atomic level. While the nanopublications format is domain-independent, the datasets that have become available in this format are mostly from Life Science domains, including data about diseases, genes, proteins, drugs, biological pathways, and bioti…
In scholarly publishing, blacklists aim to register fraudulent or deceptive journals and publishers, also known as "predatory", to minimise the spread of unreliable research and the growing of fake publishing outlets. However, blacklisting remains a very controversial activity for several reasons: there is no consensus regarding the criteria used to determine fraudulent journals, the criteria used may not always be transparent or relevant, and blacklists are rarely updated regularly. Cabell's paywalled blacklist service attempts to overcome some of these issues in reviewing fraudulent journals…
Conference publications in computer science (CS) have attracted scholarly attention due to their unique status as a main research outlet unlike other science fields where journals are dominantly used for communicating research findings. One frequent research question has been how different conference and journal publications are, considering a paper as a unit of analysis. This study takes an author-based approach to analyze publishing patterns of 517,763 scholars who have ever published both in CS conferences and journals for the last 57 years, as recorded in DBLP. The analysis shows that the …
Automated scholarly paper review: Concepts, technologies, and challenges
Xiamen University（厦门大学）；Key Laboratory of Digital Protection and Intelligent Processing of Intangible Cultural Heritage of Fujian and Taiwan, Ministry of Culture and Tourism（文化和旅游部闽台非物质文化遗产数字化保护与智能处理重点实验室）
This is the editorial for the special issue on "data-intensive geospatial computing", which I guest edited with the International Journal of Geographical Information Science (Taylor & Francis). As remarked in the editorial, the special issue is particularly special in the sense that all source and data are published together with the published papers. This editorial elaborates on scholarly communication, with particular attention to publishing data alongside papers and the emergence of open access journals, in order to make our research more open access.
Research software is increasingly recognized as a vital component of the scholarly record. Journals offer authors the opportunity to publish research software papers, but often have different requirements for how these publications should be structured and how code should be verified. In this short case study we gather data from 20 Physical Science journals to trace the frequency, quality control, and publishing criteria for software papers. Our goal with the case study is to provide a proof-of-concept for doing descriptive empirical work with software publication policies across numerous doma…
