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Selection: with tag reproducibility [64 articles] 


Software simplified

Nature, Vol. 546, No. 7656. (29 May 2017), pp. 173-174,


Containerization technology takes the hassle out of setting up software and can boost the reproducibility of data-driven research. [Excerpt] [...] Containers are essentially lightweight, configurable virtual machines — simulated versions of an operating system and its hardware, which allow software developers to share their computational environments. Researchers use them to distribute complicated scientific software systems, thereby allowing others to execute the software under the same conditions that its original developers used. In doing so, containers can remove one source of variability in ...


A manifesto for reproducible science

Nature Human Behaviour, Vol. 1, No. 1. (10 January 2017), 0021,


Improving the reliability and efficiency of scientific research will increase the credibility of the published scientific literature and accelerate discovery. Here we argue for the adoption of measures to optimize key elements of the scientific process: methods, reporting and dissemination, reproducibility, evaluation and incentives. There is some evidence from both simulations and empirical studies supporting the likely effectiveness of these measures, but their broad adoption by researchers, institutions, funders and journals will require iterative evaluation and improvement. We discuss the goals ...


Position paper for the endorsement of Free Software and Open Standards in Horizon 2020 and all publicly-funded research

In Free Software Foundation Europe (January 2017)


The Free Software Foundation Europe (FSFE) is a charity that empowers users to control technology by advocating for Free Software. In a digital world, Free Software is the fundament of Open Knowledge, Open Innovation and Open Science. [\n] Software is an integral part of today’s society. Our daily interactions, transactions, education, communication channels, work and life environments rely heavily on software. "Free Software" refers to all programs distributed under terms and licences that allow users to run the software for any purpose, ...


Running an open experiment: transparency and reproducibility in soil and ecosystem science

Environmental Research Letters, Vol. 11, No. 8. (01 August 2016), 084004,


Researchers in soil and ecosystem science, and almost every other field, are being pushed—by funders, journals, governments, and their peers—to increase transparency and reproducibility of their work. A key part of this effort is a move towards open data as a way to fight post-publication data loss, improve data and code quality, enable powerful meta- and cross-disciplinary analyses, and increase trust in, and the efficiency of, publicly-funded research. Many scientists however lack experience in, and may be unsure of the benefits ...


Five selfish reasons to work reproducibly

Genome Biology, Vol. 16, No. 1. (8 December 2015), 274,


And so, my fellow scientists: ask not what you can do for reproducibility; ask what reproducibility can do for you! Here, I present five reasons why working reproducibly pays off in the long run and is in the self-interest of every ambitious, career-oriented scientist. [Excerpt] [::Reproducibility: what's in it for me?] In this article, I present five reasons why working reproducibly pays off in the long run and is in the self-interest of every ambitious, career-oriented scientist. [::] Reason number 1: reproducibility helps to avoid ...


Enhancing reproducibility for computational methods

Science, Vol. 354, No. 6317. (09 December 2016), pp. 1240-1241,


Over the past two decades, computational methods have radically changed the ability of researchers from all areas of scholarship to process and analyze data and to simulate complex systems. But with these advances come challenges that are contributing to broader concerns over irreproducibility in the scholarly literature, among them the lack of transparency in disclosure of computational methods. Current reporting methods are often uneven, incomplete, and still evolving. We present a novel set of Reproducibility Enhancement Principles (REP) targeting disclosure challenges ...


Research software sustainability: report on a knowledge exchange workshop

(February 2016)


[Excerpt: Executive summary] Without software, modern research would not be possible. Understandably, people tend to marvel at results rather than the tools used in their discovery, which means the fundamental role of software in research has been largely overlooked. But whether it is widely recognised or not, research is inexorably connected to the software that is used to generate results, and if we continue to overlook software we put at risk the reliability and reproducibility of the research itself. [\n] The adoption of software is accompanied by new risks - many of ...


Social software

Nature Methods, Vol. 4, No. 3. (01 March 2007), pp. 189-189,


Software that is custom-developed as part of novel methods is as important for the method's implementation as reagents and protocols. Such software, or the underlying algorithms, must be made available to readers upon publication. [Excerpt] "An inherent principle of publication is that others should be able to replicate and build upon the authors' published claims. Therefore, a condition of publication in a Nature journal is that authors are required to make materials, data and associated protocols available to readers promptly on request." ...


Why linked data is not enough for scientists

Future Generation Computer Systems, Vol. 29, No. 2. (February 2013), pp. 599-611,


[Abstract] Scientific data represents a significant portion of the linked open data cloud and scientists stand to benefit from the data fusion capability this will afford. Publishing linked data into the cloud, however, does not ensure the required reusability. Publishing has requirements of provenance, quality, credit, attribution and methods to provide the reproducibility that enables validation of results. In this paper we make the case for a scientific data publication model on top of linked data and introduce the notion of Research ...


Scientists behaving badly

Nature, Vol. 435, No. 7043. (9 June 2005), pp. 737-738,


To protect the integrity of science, we must look beyond falsification, fabrication and plagiarism, to a wider range of questionable research practices, argue Brian C. Martinson, Melissa S. Anderson and Raymond de Vries. [\n] Serious misbehaviour in research is important for many reasons, not least because it damages the reputation of, and undermines public support for, science. Historically, professionals and the public have focused on headline-grabbing cases of scientific misconduct, but we believe that researchers can no longer afford to ignore ...


The natural selection of bad science

Open Science, Vol. 3, No. 9. (01 September 2016), 160384,


Poor research design and data analysis encourage false-positive findings. Such poor methods persist despite perennial calls for improvement, suggesting that they result from something more than just misunderstanding. The persistence of poor methods results partly from incentives that favour them, leading to the natural selection of bad science. This dynamic requires no conscious strategizing—no deliberate cheating nor loafing—by scientists, only that publication is a principal factor for career advancement. Some normative methods of analysis have almost certainly been selected to further ...


'We're going backward!'

Communication of the ACM, Vol. 59, No. 10. (September 2016), pp. 7-7,


[Excerpt] [...] As we move toward the present, the media of our expression seems to have decreasing longevity. Of course, newer media have not been around as long as the older ones so their longevity has not been demonstrated but I think it is arguable that the more recent media do not have the resilience of stone or baked clay. Modern photographs may not last more than 150–200 years before they fade or disintegrate. Modern books, unless archival paper is used, ...


The hard road to reproducibility

Science, Vol. 354, No. 6308. (07 October 2016), pp. 142-142,


[Excerpt] [...] A couple years ago, we published a paper applying computational fluid dynamics to the aerodynamics of flying snakes. More recently, I asked a new student to replicate the findings of that paper, both as a training opportunity and to help us choose which code to use in future research. Replicating a published study is always difficult—there are just so many conditions that need to be matched and details that can't be overlooked—but I thought this case was relatively straightforward. ...


Transparency in ecology and evolution: real problems, real solutions

Trends in Ecology & Evolution, Vol. 31, No. 9. (September 2016), pp. 711-719,


To make progress scientists need to know what other researchers have found and how they found it. However, transparency is often insufficient across much of ecology and evolution. Researchers often fail to report results and methods in detail sufficient to permit interpretation and meta-analysis, and many results go entirely unreported. Further, these unreported results are often a biased subset. Thus the conclusions we can draw from the published literature are themselves often biased and sometimes might be entirely incorrect. Fortunately there ...


Stop ignoring misconduct

Nature, Vol. 537, No. 7618. (1 September 2016), pp. 29-30,


Efforts to reduce irreproducibility in research must also tackle the temptation to cheat, argue Donald S. Kornfeld and Sandra L. Titus. [Excerpt: Preventing misconduct] To diminish the threat that misconduct poses to science, scientists and society: [::] Authorities should acknowledge that deliberate misconduct is an important contributor to irreproducibility. [::] Mentors should be evaluated to assure quality; those who contribute to misconduct should be penalized. [::] Institutions and government agencies should have procedures to protect whistle-blowers from retaliation. [::] Senior faculty members who are found guilty of ...


1,500 scientists lift the lid on reproducibility

Nature, Vol. 533, No. 7604. (25 May 2016), pp. 452-454,


Survey sheds light on the ‘crisis’ rocking research. [Excerpt] More than 70% of researchers have tried and failed to reproduce another scientist's experiments, and more than half have failed to reproduce their own experiments. Those are some of the telling figures that emerged from Nature's survey of 1,576 researchers who took a brief online questionnaire on reproducibility in research. [\n] The data reveal sometimes-contradictory attitudes towards reproducibility. Although 52% of those surveyed agree that there is a significant 'crisis' of reproducibility, less than ...


Reality check on reproducibility

Nature, Vol. 533, No. 7604. (25 May 2016), pp. 437-437,


A survey of Nature readers revealed a high level of concern about the problem of irreproducible results. Researchers, funders and journals need to work together to make research more reliable. [Excerpt] Is there a reproducibility crisis in science? Yes, according to the readers of Nature. Two-thirds of researchers who responded to a survey by this journal said that current levels of reproducibility are a major problem. [\n] [...] [\n] What does ‘reproducibility’ mean? Those who study the science of science joke that the definition ...


Promoting research resource identification at JCN

Journal of Comparative Neurology, Vol. 522, No. 8. (01 June 2014), pp. 1707-1707,


[Excerpt] [\n] [...] [\n] The attention of scientists, editors, and policymakers alike have all turned recently to the issue of reproducibility in scientific research, focusing on research spanning from the pharmaceutical industry (Begley and Ellis, 2012) to the highest levels of government (Collins and Tabak, 2014; see also McNutt, 2014). While these commentaries point out that scientific misconduct is quite rare, they do point to a confluence of factors that hinder the reproducibility of scientific findings, including the identification of key reagents, such ...


The Resource Identification Initiative: a cultural shift in publishing

Neuroinformatics, Vol. 14, No. 2. (2016), pp. 169-182,


A central tenet in support of research reproducibility is the ability to uniquely identify research resources, i.e., reagents, tools, and materials that are used to perform experiments. However, current reporting practices for research resources are insufficient to identify the exact resources that are reported or to answer basic questions such as “How did other studies use resource X?” To address this issue, the Resource Identification Initiative was launched as a pilot project to improve the reporting standards for research resources in ...


(INRMM-MiD internal record) List of keywords of the INRMM meta-information database - part 30

(February 2014)
Keywords: inrmm-list-of-tags   receptivity   record-to-update-or-delete   red-list   redd   redistributable-scientific-information   reference-manual   reforestation   refugia   regeneration   regional-climate   regional-climate-models   regional-scale   regression   regression-tree-analysis   regulating-services   reinforcement   reinforcement-learning   reinventing-weels   reiteration   relative-distance-similarity   relative-distance-similarity-ancillary   remote-sensing   renewable-energy   renewable-energy-directive   repeatability   repellent-species   replicability   reporting   representative-concentration-pathways   reproducibility   reproducible-research   reproduction   reproductive-effort   resampling   research-funding   research-funding-vs-public-outcome   research-management   research-metrics   research-team-size   reservoir-management   reservoir-services   resilience   resin   resistance   resources-exploitation   respiration   restoration   resurvey-of-semi-permanent   retraction   review   review-publication   review-scopus-european-biodiversity-indicators   revision-control-system   rewarding-best-research-practices   rhamnus-cathartica   rhamnus-catharticus   rhamnus-frangula   rhamnus-saxatilis   rhamnus-spp   rhizophora-apiculata   rhizophora-mangle   rhododendron   rhododendron-arboreum   rhododendron-ferrugineum   rhododendron-periclymenoides   rhododendron-ponticum   rhododendron-spp   rhododendron-viscosum   rhopalicus-tutela   rhus-spp   rhus-typhina   rhyacionia-buoliana   rhyacionia-frustrana   rhyssa-persuasoria   rhytisma   ribes-alpinum   ribes-rubrum   ribes-uva-crispa   ring-analysis   ring-width-chronologies   ringspot-virus   riparian-ecosystem   riparian-forest   riparian-zones   risk-analysis   risk-assessment   risk-reduction   river-flow   river-networks   river-restoration   roads   robert-hooke   robinia-pseudoacacia   robinia-spp   robust-modelling   rockfalls   rodent   romania   root-deterioration  


List of indexed keywords within the transdisciplinary set of domains which relate to the Integrated Natural Resources Modelling and Management (INRMM). In particular, the list of keywords maps the semantic tags in the INRMM Meta-information Database (INRMM-MiD). [\n] The INRMM-MiD records providing this list are accessible by the special tag: inrmm-list-of-tags ( ). ...


The integration of land change modeling framework FUTURES into GRASS GIS 7

In Free and Open Source Software for Geospatial - Open innovation for Europe, Vol. 12 (2015), pp. 21-24


Many valuable models and tools developed by scientists are often inaccessible to their potential users because of non-existent sharing infrastructure or lack of documentation. Case in point is the FUTure Urban-Regional Environment Simulation (FUTURES), a patch-based land change model for generating scenario-based regional forecasts of urban growth pattern. Despite a high- impact publication, few scientists, planners, or policy makers have adopted FUTURES due to complexity in use and lack of direct access. We seek to address these issues by integrating FUTURES into GRASS GIS, a free and open source ...


  1. Bivand, R. (2007). Using the R–Grass interface. OSGeo Journal, 1, 36-38.
  2. Chemin, Y Petras, V., Petrasova, A., Landa, M., Gebbert, S., Zambelli, P., Neteler, M., Löwe, P., Di Leo, M. (2015). GRASS GIS: a peer-reviewed scientific platform and future research repository. Geophysical Research Abstracts 17, 8314+. INRMM-MiD:13544126
  3. Di Leo, M., de Rigo, D., Rodriguez-Aseretto, D., Bosco, C., Petroliagkis, T., Camia, A., San-Miguel-Ayanz, J. (2013). Dynamic data driven ensemble for wildfire behaviour

Raising the bar for reproducible science at the U.S. Environmental Protection Agency Office of Research and Development

Toxicological Sciences, Vol. 145, No. 1. (01 May 2015), pp. 16-22,


Considerable concern has been raised regarding research reproducibility both within and outside the scientific community. Several factors possibly contribute to a lack of reproducibility, including a failure to adequately employ statistical considerations during study design, bias in sample selection or subject recruitment, errors in developing data inclusion/exclusion criteria, and flawed statistical analysis. To address some of these issues, several publishers have developed checklists that authors must complete. Others have either enhanced statistical expertise on existing editorial boards, or formed distinct statistics ...


Statistics: P values are just the tip of the iceberg

Nature, Vol. 520, No. 7549. (28 April 2015), pp. 612-612,


Ridding science of shoddy statistics will require scrutiny of every step, not merely the last one, say Jeffrey T. Leek and Roger D. Peng. [Excerpt] There is no statistic more maligned than the P value. Hundreds of papers and blogposts have been written about what some statisticians deride as 'null hypothesis significance testing' (NHST; see, for example, NHST deems whether the results of a data analysis are important on the basis of whether a summary statistic (such as a P value) ...


Interactive comment (reply to Anonymous Referee 3) on Modelling soil erosion at European scale: towards harmonization and reproducibility - by Bosco et al

Natural Hazards and Earth System Sciences Discussions, Vol. 2 (2014), pp. C1786-C1795,


Throughout the public discussion of our article Bosco et al. (Nat. Hazards Earth Syst. Sci. Discuss., 2, 2639-2680, 2014), the Anonymous Referee 3 provided (Nat. Hazards Earth Syst. Sci. Discuss., 2, C1592-C1594, 2014) a variety of insights. This work presents our replies to them. ...


Interactive comment (reply to Dino Torri) on Modelling soil erosion at European scale: towards harmonization and reproducibility - by Bosco et al

Natural Hazards and Earth System Sciences Discussions, Vol. 2 (2014), pp. C671-C688,


During the public discussion of our article Bosco et al. (Nat. Hazards Earth Syst. Sci. Discuss., 2, 2639-2680, 2014), D. Torri provided numerous insights (Nat. Hazards Earth Syst. Sci. Discuss. 2, C528-C532, 2014). This work offers our replies to them. ...


Top tips to make your research irreproducible

(8 Apr 2015)


It is an unfortunate convention of science that research should pretend to be reproducible; our top tips will help you mitigate this fussy conventionality, enabling you to enthusiastically showcase your irreproducible work. [Excerpt] [...] Irreproducibility is the default setting for all of science, and irreproducible research is particularly common across the computational sciences. [...] By following our starter tips, you can ensure that if your work is wrong, nobody will be able to check it; if it is correct, you will make everyone else do disproportionately ...


Drought-Induced Reduction in Global Terrestrial Net Primary Production from 2000 Through 2009

Science, Vol. 329, No. 5994. (20 August 2010), pp. 940-943,


Terrestrial net primary production (NPP) quantifies the amount of atmospheric carbon fixed by plants and accumulated as biomass. Previous studies have shown that climate constraints were relaxing with increasing temperature and solar radiation, allowing an upward trend in NPP from 1982 through 1999. The past decade (2000 to 2009) has been the warmest since instrumental measurements began, which could imply continued increases in NPP; however, our estimates suggest a reduction in the global NPP of 0.55 petagrams of carbon. Large-scale droughts ...


An open investigation of the reproducibility of cancer biology research

eLife, Vol. 3 (10 dec 2014), e04333,
edited by Peter Rodgers


It is widely believed that research that builds upon previously published findings has reproduced the original work. However, it is rare for researchers to perform or publish direct replications of existing results. The Reproducibility Project: Cancer Biology is an open investigation of reproducibility in preclinical cancer biology research. We have identified 50 high impact cancer biology articles published in the period 2010-2012, and plan to replicate a subset of experimental results from each article. A Registered Report detailing the proposed experimental ...


Time to do something about reproducibility

eLife, Vol. 3 (10 December 2014), e03981,


Individual scientists, scientific communities and scientific journals can do more to assess the publication of irreproducible results, to promote good science, and to increase the efficiency with which the scientific community self-corrects. ...


Reproducibility in ecological research



[Excerpt] The editorial by M. McNutt (“Journals unite for reproducibility,” 7 November, p. 679, published online 5 November) describes an updated version of the solution from journals, including Science and Nature, for reproducibility in biomedical research. If the new policy is to be widely implemented by scientific journals, then the changes must be consistent and mandatory. Reproducibility is not just relevant for biomedical research. Ecology and biodiversity scientists are also increasingly concerned about issues of reproducibility and data sharing (1–3). Reproducibility ...


Reproducible research can still be wrong: adopting a prevention approach

Proceedings of the National Academy of Sciences, Vol. 112, No. 6. (11 February 2015), pp. 1645-1646,


[Excerpt] Reproducibility—the ability to recompute results—and replicability—the chances other experimenters will achieve a consistent result—are two foundational characteristics of successful scientific research. Consistent findings from independent investigators are the primary means by which scientific evidence accumulates for or against a hypothesis. Yet, of late, there has been a crisis of confidence among researchers worried about the rate at which studies are either reproducible or replicable. To maintain the integrity of science research and the public’s trust in science, the scientific community ...

Visual summary


Modelling soil erosion at European scale: towards harmonization and reproducibility

Natural Hazards and Earth System Science, Vol. 15, No. 2. (4 February 2015), pp. 225-245,


Soil erosion by water is one of the most widespread forms of soil degradation. The loss of soil as a result of erosion can lead to decline in organic matter and nutrient contents, breakdown of soil structure and reduction of the water-holding capacity. Measuring soil loss across the whole landscape is impractical and thus research is needed to improve methods of estimating soil erosion with computational modelling, upon which integrated assessment and mitigation strategies may be based. Despite the efforts, the ...


Data, eternal

Science, Vol. 347, No. 6217. (02 January 2015), pp. 7-7,


[Excerpt] During 2014, Science worked with members of the research community, other publishers, and representatives of funding agencies on many initiatives to increase transparency and promote reproducibility in the published research literature. Those efforts will continue in 2015. Connected to that progress, and an essential element to its success, an additional focus will be on making data more open, easier to access, more discoverable, and more thoroughly documented. My own commitment to these goals is deeply held, for I learned early in ...


Curricula for ICT in education - Version #1.01



[Overview] The National Policy on ICT in school education has set the goal of preparing youth to participate creatively in the establishment, sustenance and growth of a knowledge society leading to all round socio-economic development of the nation and to be geared for global competitiveness. The National Curriculum Framework which guides the teaching-learning effort in schools cautions that technology used as a mere medium to disseminate infor- mation tends to bypass the teacher. It expresses a firm belief that teachers and children ...


Facilitating reproducibility in scientific computing: principles and practice

In Reproducibility: Principles, Problems, Practices (2015)


The foundation of scientific research is theory and experiment, carefully documented in open publications, in part so that other researchers can reproduce and validate the claimed findings. Unfortunately, the field of scientific and mathematical computing has evolved in ways that often do not meet these high standards. In published computational work, frequently there is no record of the work ow process that produced the published computational results, and in some cases, even the code is missing or has been changed significantly ...


  1. Linpack. Available at
  2. NIST digital library of mathematical functions. Available at
  3. Heartbleed. 2014. Available at
  4. Top500 list. July 2014. Available at
  5. A. Abad, R. Barrio, and A. Dena. Computing periodic orbits with arbitrary precision. Phys. Rev. E, 84:016701, 2011
  6. D. H. Bailey. Misleading performance reporting in the supercomputing field. Scientific

Metascience could rescue the ‘replication crisis’

Nature, Vol. 515, No. 7525. (4 November 2014), pp. 9-9,


Independent replication of studies before publication may reveal sources of unreliable results, says Jonathan W. Schooler. ...


Journals unite for reproducibility

Nature, Vol. 515, No. 7525. (5 November 2014), pp. 7-7,


[Excerpt] Consensus on reporting principles aims to improve quality control in biomedical research and encourage public trust in science. Reproducibility, rigour, transparency and independent verification are cornerstones of the scientific method. Of course, just because a result is reproducible does not make it right, and just because it is not reproducible does not make it wrong. A transparent and rigorous approach, however, will almost always shine a light on issues of reproducibility. This light ensures that science moves forward, through independent verifications ...


A swan in the making

Science, Vol. 345, No. 6199. (22 August 2014), pp. 855-855,


Reproducibility is the ugly duckling of science. It provokes distress, denial, and passionate calls for action. With $1.5 trillion spent globally each year on R&D,* the idea that 80% of it is irreproducible† can cause downright dread. It threatens the foundations and credibility of the scientific enterprise. But look past the surface, and reproducibility may well be a swan in the making. ...



Science, Vol. 343, No. 6168. (17 January 2014), pp. 229-229,


Science advances on a foundation of trusted discoveries. Reproducing an experiment is one important approach that scientists use to gain confidence in their conclusions. Recently, the scientific community was shaken by reports that a troubling proportion of peer-reviewed preclinical studies are not reproducible. Because confidence in results is of paramount importance to the broad scientific community, we are announcing new initiatives to increase confidence in the studies published in Science. For preclinical studies (one of the targets of recent concern), we ...


Announcement: reducing our irreproducibility

Nature, Vol. 496, No. 7446. (24 April 2013), pp. 398-398,


[Excerpt] Over the past year, Nature has published a string of articles that highlight failures in the reliability and reproducibility of published research (collected and freely available at The problems arise in laboratories, but journals such as this one compound them when they fail to exert sufficient scrutiny over the results that they publish, and when they do not publish enough information for other researchers to assess results properly. From next month, Nature and the Nature research journals will introduce editorial ...


Integrated assessment models for ecologists: the present and the future

Global Ecology and Biogeography, Vol. 23, No. 2. (February 2014), pp. 124-143,


[Aim] Human impacts on the biosphere are a matter of urgent and growing concern, with ecologists increasingly being asked to project biodiversity futures. The Intergovernmental Platform on Biodiversity and Ecosystem Services (IPBES) is likely to comprehensively assess such projections, yet despite being widely used and potentially critical tools for analysing socio-environmental futures, integrated assessment models (IAMs) have received little attention from ecological modellers. We aim to raise awareness and understanding of IAMs among ecologists by describing the structure and composition of ...


Modelling soil erosion at European scale: towards harmonization and reproducibility

Natural Hazards and Earth System Sciences Discussions, Vol. 2, No. 4. (11 April 2014), pp. 2639-2680,


Soil erosion by water is one of the most widespread forms of soil degradation. The loss of soil as a result of erosion can lead to decline in organic matter and nutrient contents, breakdown of soil structure and reduction of the water holding capacity. Measuring soil loss across the whole landscape is impractical and thus research is needed to improve methods of estimating soil erosion with computational modelling, upon which integrated assessment and mitigation strategies may be based. Despite the efforts, ...


Modeling, informatics, and the quest for reproducibility

Journal of Chemical Information and Modeling, Vol. 53, No. 7. (12 June 2013), pp. 1529-1530,


There is no doubt that papers published in the Journal of Chemical Information and Modeling, and related journals, provide valuable scientific information. However, it is often difficult to reproduce the work described in molecular modeling and cheminformatics papers. In many cases the software described in the paper is not readily available, in other cases the supporting information is not provided in an accessible format. To date, the major journals in the fields of molecular modeling and cheminformatics have not established guidelines ...


Letter to the Editor - Comment on editorial on software distribution in science

Journal of Chemical Information and Modeling, Vol. 24, No. 4. (1 November 1984), pp. 276-276,


I am accepting your invitation to comment on your editorial in the May issue of JCICS regarding the subject of scientists’ commercial stakes in programs that they write for scientific purposes. I feel strongly about this issue because I believe that the spirit of scientific investigation and the spirit of scientific cooperation are threatened by the behavior of some of our new entrepreneurs who desire to get rich quick. The question of vested interest can be resolved at the publication level, at ...


Identification failure

Nature, Vol. 501, No. 7467. (18 September 2013), pp. 451-451,


Lack of experimental-resource identifiers in papers may affect reproducibility. ...


On the reproducibility of science: unique identification of research resources in the biomedical literature

PeerJ, Vol. 1 (05 September 2013), e148,


Scientific reproducibility has been at the forefront of many news stories and there exist numerous initiatives to help address this problem. We posit that a contributor is simply a lack of specificity that is required to enable adequate research reproducibility. In particular, the inability to uniquely identify research resources, such as antibodies and model organisms, makes it difficult or impossible to reproduce experiments even where the science is otherwise sound. In order to better understand the magnitude of this problem, we ...


Better living through transparency: improving the reproducibility of fMRI results through comprehensive methods reporting

In Cognitive, Affective, & Behavioral Neuroscience (2013), pp. 1-7,


Recent studies suggest that a greater proportion of published scientific findings than expected cannot be replicated. The field of functional neuroimaging research is no exception to this trend, with estimates of false positive results ranging from 10 % to 40 %. While false positive results in neuroimaging studies stem from a variety of causes, incomplete methodological reporting is perhaps the most obvious: Most published reports of neuroimaging studies provide ambiguous or incomplete descriptions of their methods and results. If neuroimaging researchers do not ...


Git can facilitate greater reproducibility and increased transparency in science

Source Code for Biology and Medicine, Vol. 8, No. 1. (28 February 2013), 7,


Reproducibility is the hallmark of good science. Maintaining a high degree of transparency in scientific reporting is essential not just for gaining trust and credibility within the scientific community but also for facilitating the development of new ideas. Sharing data and computer code associated with publications is becoming increasingly common, motivated partly in response to data deposition requirements from journals and mandates from funders. Despite this increase in transparency, it is still difficult to reproduce or build upon the findings of ...


On reproducible econometric research

J. Appl. Econ., Vol. 24, No. 5. (1 August 2009), pp. 833-847,


Recent software developments are reviewed from the vantage point of reproducible econometric research. We argue that the emergence of new tools, particularly in the open-source community, have greatly eased the burden of documenting and archiving both empirical and simulation work in econometrics. Some of these tools are highlighted in the discussion of two small replication exercises. Copyright © 2009 John Wiley & Sons, Ltd. ...


Lessons from the JMCB Archive

Journal of Money, Credit, and Banking, Vol. 38, No. 4. (2006), pp. 1093-1107,


We examine the online archive of the Journal of Money, Credit, and Banking, in which an author is required to deposit the data and code that replicate the results of his paper. We find that most authors do not fulfill this requirement. Of more than 150 empirical articles, fewer than 15 could be replicated. Despite all this, there is no doubt that a data/code archive is more conducive to replicable research than the alternatives. We make recommendations to improve the functioning ...

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Integrated Natural Resources Modelling and Management - Meta-information Database.

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Publication metadata

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Meta-information Database (INRMM-MiD).
This database integrates a dedicated meta-information database in CiteULike (the CiteULike INRMM Group) with the meta-information available in Google Scholar, CrossRef and DataCite. The Altmetric database with Article-Level Metrics is also harvested. Part of the provided semantic content (machine-readable) is made even human-readable thanks to the DCMI Dublin Core viewer. Digital preservation of the meta-information indexed within the INRMM-MiD publication records is implemented thanks to the Internet Archive.
The library of INRMM related pubblications may be quickly accessed with the following links.
Search within the whole INRMM meta-information database:
Search only within the INRMM-MiD publication records:
Full-text and abstracts of the publications indexed by the INRMM meta-information database are copyrighted by the respective publishers/authors. They are subject to all applicable copyright protection. The conditions of use of each indexed publication is defined by its copyright owner. Please, be aware that the indexed meta-information entirely relies on voluntary work and constitutes a quite incomplete and not homogeneous work-in-progress.
INRMM-MiD was experimentally established by the Maieutike Research Initiative in 2008 and then improved with the help of several volunteers (with a major technical upgrade in 2011). This new integrated interface is operational since 2014.