Questions tagged [reproducible-research]

Questions related to research in which data and/or code is made publicly available so that others may verify the findings and build upon them.

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4
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1answer
129 views

Is there a way to see which papers have used a particular R package?

I'm a new user of an R package (tidy text mining) and I'd like to see what papers have used this package as examples for the kind of things I can do with it. Is there a way to do this?
1
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0answers
45 views

How do I find the ML model referenced in a specific paper when the authors don't provide it?

I'm trying to locate the architecture of an LSTM neural network as described here, but the authors don't provide a repository for other academics. From arXiv, I see more than a dozen other researchers ...
2
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1answer
81 views

Reproducing experimental data from published work

I am doing theoretical study of a material and in my recent work I have compared my calculated results with experimental results from another published work. During review, the reviewer has mentioned ...
3
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1answer
119 views

Google Scholar Syntax quirks: results depend on order of search strings [closed]

I am working on a systematic literature review and noticed something quite disturbing since I want to base my work on Google Scholar results: The number and actual results returned by Google Scholar ...
1
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2answers
139 views

Different results when experiment repeated

Have you all ever had different results when repeating your own experiment? I did some work for my dissertation and am now redoing it for better images and hopefully for publication. The results are ...
3
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2answers
117 views

Should I make my code and data avaiable online when the article is not accepted yet?

We have received a set of reviews for an article that we had submitted to a journal. The decision by the journal editor is a Major Revision. That means, there is a possibility that the article could ...
3
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1answer
261 views

Asking name to be taken off a paper

I am asking about the etiquette for getting my name taken off a paper. In grad school I did a collaboration with a PI and the results were limited but okay and I used a very specific microscope to ...
1
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2answers
223 views

How much should we trust that the approach described in a paper solves the problem that it addresses as well as it claims to?

To be honest, I'm not sure how exactly to word my question in order not to cause any miss-understanding. During my literature review sometimes I encounter with researches which propose an approach ...
2
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1answer
48 views

Can you upload an appendix externally for referencing?

I am submitting an article to an IEEE transactions journal with a strict page limit. We have already scrapped heaps of text, but can't shorten the appendix (or do without) since this would prevent ...
2
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1answer
108 views

What can be done (by the community as a whole) to make it easy (for persons other than the authors) to reproduce numerical results in a paper?

For example see reproduced papers repository. I am restricting the scope to theory papers that have some results obtained through numerical techniques. The fields may be as diverse as physics, ...
39
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4answers
12k views

Requesting raw data from previously published research

I am working on a mathematical model to help explain some experimental results and generate new hypotheses. Unfortunately, I have neither the resources nor interest to gather experimental data, but in ...
1
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2answers
51 views

Reproducible, open, transparent, ethical Research when confronted to (patient) data anonymization : is it at all possible in practice?

A lot of Hype goes in reproducible, open and transparency for data analysis theses days in some fields mores that other. The code is to be share as well as the dataset. How to achieve this in a ...
5
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3answers
239 views

Is it acceptable practice to make the source code of a re-implemented paper available online

It is the usual practice that researchers re-implement others' work for the purpose of comparison or result verification. If for instance researcher A re-implements researcher B's paper and improves ...
-1
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1answer
88 views

History behind reproducible research tools and literate programming [closed]

Reproducibility was talked about by Robert Boyle in 17th century. Literate Programming was invented in 1984 by Donald Knuth. Reproducible Research tools like R markdown were invented recently. My ...
60
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6answers
12k views

How to proceed when the baseline (state-of-the-art) published results claim much better performance than I can reproduce?

I am graduate student, to finish my degree I need to build methods outperform what is already there. An issue that I came across with, is that two papers reported way (I mean more than 20%) more than ...
4
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2answers
211 views

How to deal with non-reproducible research?

For context, I am a PhD student in bioinformatics, working partly in development of new statistical models and partly in applying models to data. I recently came across a paper which describes an ...
1
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1answer
217 views

How do we test in academia, if a research area is a money burning machine or non/pseudo-scientific?

In the recent decades more and more meta studies were undertaken on the reproducibilty rate of distinct research areas like psychology, biomedicine... The results are probably shocking to most ...
3
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1answer
181 views

What are the advantages of writing a thesis with rMarkdown? [closed]

I think the question is self-explanatory but to add a bit of a background, I'll be starting my M.Sc. research quite soon and I want to create and maintain a workflow that allows me to devote my time ...
34
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4answers
25k views

Can I request the code behind a research paper from the author?

I am in the field of computer science. It is often the case when I am reading a paper I start to wonder, "Wow stunning results, however, I would like to prove that." or "How exactly did he get these ...
27
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5answers
5k views

What to do when the claims in a paper are proven to be wrong?

What can be done to correct an error that might be hiding a certain author's sole purpose of publishing a paper, no matter the soundness of their method? In a nutshell, the particular case that ...
-1
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1answer
122 views

Are most real-world (engineering) problems about scale? [closed]

As an engineering post-graduate student a few years back, and now an engineer working in industry, I have often had this realization very strongly - that most problems we "adults" work on are about "...
3
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2answers
114 views

Is it worth posting reproducibility studies

As an undergraduate interested in Academia, is it worth posting your reproducibility study of a paper on arXiv and linking to it on Google scholar? Is it useful to future graduate schools? ...
4
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2answers
269 views

Incentives for independent researchers to work on reproducible research

For the sake of high-quality science diffusion, there is no doubt that reproducible research is a good practice as it helps to demonstrate the robustness of the proposed methods and boosts the ...
6
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2answers
255 views

Is it beneficial for a student to publish their research code and data?

There are at least four benefits of releasing the code and data produced during a thesis or research project (citing textually this laboratory): Allows to reproduce figures in the revisions of a ...
6
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2answers
340 views

Am I responsible for not reproducibility of collaborators’ result?

Recently, I have ran into some issues about reproducibility of some of my research results which are obtained by our collaborators from different university. In fact, in our current repository there ...
4
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1answer
122 views

Reproducible science: do entities exist requiring Level 3 of TOP standards?

Quite many (if not most of) scientific articles, related to computational sciences, which I have seen, do not share both data and code leading to the figures. This may have of course good reasons ...
11
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2answers
6k views

What is the difference between repeatability, replicability and reproducibility?

I have seen many instances where authors used the term "reproducibility" and "replicability" interchangeably in the social and behavioural sciences. Sometimes, they distinguish between the "...
-2
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2answers
246 views

How to become a reliable researcher? [closed]

I am a biology student with major interest in neuroscience and molecular biology. It's my first year at university. What should I do if I want to be a reliable researcher in biological sciences, ...
8
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2answers
198 views

Reproducing work of others - name them as conflicts of interest?

We are currently reproducing several papers in a specific sub-field of computer science under different experimental conditions. When we submit the paper, we will be required to declare people who may ...
18
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3answers
673 views

Do we know what proportion of scientific reproducibility issues are fraud-related?

A few days ago there was an article on the LSE blog about scientific reproducibility which made little sense to me until I realised they were equating 'low reproducibility' with 'scientific fraud': ...
9
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3answers
631 views

What exactly would count as copyright infringement in a replication paper?

I have been following the review process of a replication journal In particular, it has an open review which can be seen. On a particular submission they are having a debate about whether copying ...
2
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3answers
158 views

Finding reproducible articles

My idea is learning new methods/fields by reproducing someone else results, and I would like to pick nice/good papers to learn from. If we define reproducibility as starting from the same samples/data,...
4
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1answer
357 views

Where can I find examples of research misconduct reports?

I am writing a report documenting evidence for research misconduct. The report is to be submitted to the ethics board of a university. Are there publicly available examples of such reports? Not the ...
5
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2answers
279 views

Reproducible and exact calculations vs. approximate and slightly random results in experiment

When experiments are performed and reported in an academic article, I learned that reproducibility is important. I am implementing a system where I stand between the choices to use GPU acceleration to ...
84
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12answers
12k views

Is it ethical to use proprietary (closed-source) software for scientific computation?

I have data from an ordinary scientific experiment. Now, in order to analyse the data, the most convenient way for me is to use some proprietary, closed-source software. Is it ethical to use such ...
4
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1answer
314 views

What is the best philosophy and practice to use smartphones for academic life? [closed]

I am doing research in theoretical physics, and have learned that smartphones can bring in a lot of distractions to your life if you want to focus on your research and study. Like facebook, twitter ...
5
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1answer
159 views

Ask the author of a paper for suggestions of where to publish replication results

I based my thesis on a published paper and ask its original author if he was interested in seeing the results. After approaching him (with your help provided: How to address an author showing ...
57
votes
7answers
3k views

Popular proprietary program or obscure open source substitute for reproducible research?

For a long time, I had been using open source software for my work to boost "reproducible research". I believed that if I made my codes open source and the softwares to run those codes in were open ...
6
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2answers
286 views

How to address an author showing replicated results from his paper?

I have replicated a method of interpolation recently proposed by certain author, and I want to tell him that I have done so. I suppose the author is interested in knowing that students are engaged ...
63
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5answers
8k views

Why not make students reproduce work?

Typically, PhD theses are expected to have novel results. As science advances, it is becoming increasingly difficult to accumulate enough knowledge to begin a project that pushes the boundaries. ...
29
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8answers
5k views

Who is supposed to repeat experiments?

A follow up to this question. There is an issue in science with experiments not being repeated. I asked if PhDs can be done on repeating experiments and the answer is kind of mixed. Most PhDs aren't ...
16
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3answers
2k views

Can you do a PhD solely on repeating experiments of others?

In here, they say there is a problem with results not being replicated. I know a PhD is supposed to be "original" research. But could you do a PhD solely on replicating the results of others? ...
2
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1answer
69 views

Do measurement protocols belong anywhere in the scientific publications?

My research as a starting PhD student currently consists of reproducing and building upon the experiments carried out by other research groups 5--10 years ago. To this end, I have developed a number ...
9
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2answers
646 views

Pedagogical pros and cons of requiring undergraduate students to follow open/reproducible research practices?

I regularly teach an undergraduate course in which students are expected to complete projects that involve writing code. I also supervise undergraduates in other project and thesis work that involve ...
27
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4answers
4k views

Why are papers accepted even if they don't release code or data to allow reproducibility?

Recently, we had a lecture about Reproducible research on of the slides was: Reproducibility: start from the same samples/data, use the same methods, get the same results. Replicability: ...
15
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4answers
3k views

How does a PhD student go about doing a meta analysis of a research question?

I just thought that I would put this question out here because I am currently working on a meta analysis of a particular research question in my field (HCI/information science). Moreover, this ...
1
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1answer
92 views

How to identify studies that should be replicated?

In psychology voting on which studies should be replicated is established on a website. The ReplicationWiki (that I founded) offers a voting option for studies in economics and related fields, but it ...
38
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3answers
3k views

How to get the data to reproduce a published result?

I'm studying published journal articles on my topic, and I'd like to reproduce their analysis. How can I get a copy of their dataset and enough specifications to reproduce their numerical results? ...
12
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2answers
581 views

How do you validate a scientific paper that uses a non-public cell/animal line?

Recently my lab published a paper that uses a mouse line from another lab. Without going into too much detail since not everyone here is a Biologist, this other lab has a mouse with a reporter gene ...
18
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5answers
4k views

Can I trust a paper that hides implementation details?

In Computer Science, sometimes we're assigned to reproduce the results presented by a paper that already have been published. In many cases (most of them) the code is not available, making the task ...