Queries related to various software used in academia. Questions shall not address highly technical aspects of the software but shall address features/issues highly relevant to academia.

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2
votes
1answer
216 views

In performing a comparison, how can I get authors to actually respond to a request for source code?

I'm doing my PhD in computer science and am working in computer vision. I have come up with an algorithm that my supervisors consider to be promising and publishable. It took me a long time to get ...
-1
votes
0answers
21 views

Is there any backup software that doessn't save to a proprietary file format? [migrated]

I backup my data fairly reliably but three times I have been put into a situation where when the backup was needed the backup program failed and I was told the software was no longer being supported. ...
35
votes
12answers
7k views

Do résumés written in LaTeX show more promise when applying to graduate schools?

I am a computer science student from India. I noticed that most of the résumés and thesis papers etc. I see are written in LaTeX. If I write my résumé in Word (say) rather than LaTeX, will it have a ...
54
votes
9answers
15k views

Is it immoral to show new students how to use Wolfram Alpha?

Currently, I'm working as an assistant at the mathematics department of my university. My job consists of sitting for 20 hours a week in an office to which students come with doubts regarding all the ...
7
votes
3answers
182 views

How to keep track of deliverables for supervised students when you supervise many students?

Background: In my area, academics often supervise a large number of students (e.g., 10, 15, 20 students). Many of these students are doing a small thesis as part of either their fourth year or ...
7
votes
6answers
2k views

Academic writing software

General-purpose word-processing programs are OK for academic writing. But I feel the experience can be much improved with some specialized software that takes better care of the special needs of ...
4
votes
1answer
131 views

Is there any system that enables online office hours?

Can anyone comment on their own implementation of online office hours, ideally with the following characteristics: Free. (I'm happy to install software on my own server if needed) Allows for live ...
1
vote
1answer
83 views

Questions to speaker per Smartphone in University lectures

I was at the MIT-Vienna-Conference and they had a pretty nice App-System (Superevent), where Questions to the Speaker could be asked per the Superevent-app, upvoted from others and finally answered by ...
11
votes
4answers
1k views

Alternatives to Word/LaTeX [closed]

I wrote my undergrad thesis using Word. Overall I managed to get the job done, but as with all WYSIWYG editors, by the end I feel like I had created a bit of a mess. It didn't show, but I know it's ...
1
vote
3answers
57 views

Collaboration tool for students and teachers

I'm looking for a tool (web application) similar to Atlassian Confluence but for academic purposes. The main purpose of that is to allow selected teachers and students from different schools ...
1
vote
1answer
106 views

As a student representative, how can I convince the university to apply security upgrades to the online learning system?

In my university, we've been using Moodle for many years (>5y). There was a general negative opinion on the Moodle for very different reasons, from "it's ugly" to "it's not up to date", going through ...
1
vote
1answer
51 views

How to set bibliographic entry to display author only when applicable?

I'm writing my bachelor's thesis with OpenOffice Writer. Most of my sources are websites, and the author or publication year is often absent. With Writer's bibliography system, you can specify ...
8
votes
3answers
787 views

Is development research?

I'm a Msc student, and my project is to develop a novel software tool for use in neurosurgery. There is a current tool that is considered the standard of care for the procedure, but it has low rates ...
1
vote
1answer
91 views

How to integrate partial version control, data exchange and research assistants?

Currently, my coauthors and I use GitHub to collaborate in coding and writing but also in data exchange. We have a lot of data, often not in text format (e.g. pdf). Most of this is collected by ...
2
votes
0answers
53 views

Plagiarism detection software – comparing two long documents [duplicate]

I would like to find out whether one of two long documents plagiarises the other. I’m looking for software or a website that does this but does not store the documents on the server (i.e., the ...
10
votes
3answers
630 views

Which free online academic plagiarism checker is closest to Turnitin?

Which free online academic plagiarism checker is closest to Turnitin by quality standard of rigour? Turnitin features that even somebody plagiarize the context of a passage by use synonyms or simply ...
16
votes
4answers
327 views

Is there evidence that open source research software produces more uptake of methods?

In recent years there has been a drive to make science more open. This includes making the software used to perform research open source. The main argument in favour of this idea is that research ...
3
votes
1answer
52 views

Should I cite the author of software tool or script that I use? [duplicate]

I'm writing a paper for my Ethical Hacking class. In 'hacking', you use a lot of tools written by other people, some of them are mainstream and/or made by big teams, others are less known and made by ...
-1
votes
1answer
39 views

Does software exist for supporting conducting SLRs

I'm conducting a (short) structured literature review to generate new hypotheses. Given the fact I'm on my own, I thought of writing a little scraper (reduces bias) to automatically download the ...
7
votes
1answer
119 views

What papers can you ask someone to cite for using your software?

Ofen Software authors request that users cite a paper of theirs in publications resulting from projects using their software. As such an software author, what logic governs what kind of papers you ...
-2
votes
1answer
78 views

Free Microsoft Visio for Education - Mac User [closed]

I need a Microsoft Visio-like tool that works on a Mac and is free for educational users.
179
votes
19answers
20k views

Should I share my horrible software?

After I had published my paper, some people asked me to share the software that I developed. At first, I was very happy that my paper attracted some attention, and I was happy to share not only the ...
2
votes
2answers
93 views

Getting credit/ownership for improved software

I recently made some changes to a piece of (proprietary) code that my group uses which has made it two orders of magnitude faster. The code I updated wasn't mine and the original algorithm IP was ...
6
votes
2answers
452 views

Is there any automated way I can detect if a co-author plagiarized before our paper is submitted?

My professor, a co-author and I have been working on a paper for more than a year. I was doing the math and simulations, my co-author was responsible for the writing, and my professor was editing the ...
6
votes
4answers
366 views

Release software before the accompanying publication gets reviewed or accepted?

Is common practice to release an academic software before the publication of the accompanying paper in a scientific journal? What are the pros and cons of a prior release? Edit: I am not concerned ...
3
votes
1answer
127 views

Software to create repositories of students' software projects

I want to be able to store the software projects my students submit so I can catch plagiarism. Some students copy work from previous years and it would be really helpful if I could find a way to store ...
6
votes
5answers
440 views

How does a software application idea become a research project?

As a software developer just starting out in research (working for a lab) I have this idea of a software application which is meant to target a specific need: specifically to help users query data ...
2
votes
1answer
57 views

Is it necessary to provide links to the mentioned softwares' websites on my CV?

I am writing my CV and, in the Skills section, I have listed the name of the softwares that I've worked with. Some of them are well-known softwares, but some are open source codes that may not be ...
5
votes
1answer
246 views

What are the drawbacks of HTML5 presentation software?

I use pdf files, generated with Beamer/LaTeX, and whatever pdf viewer is available on the computer I am presenting on. While I like the Beamer/LaTeX/PDF combination better than PowerPoint type ...
22
votes
5answers
2k views

Ignored Requests Open-Source Software from a Research Group

For more than 6 weeks now, I have been attempting to contact a post-doc or their (former?) PI to request access to either the source code or software of a tool that was published in BMC ...
11
votes
3answers
869 views

Why should I format a citation manually without bibliographic software?

During a lecture (and a separate presentation) my instructor told us about bibliographic software, how it composes references automatically and is able to correctly cite articles in many formats. The ...
32
votes
4answers
2k views

Why do some journals prefer MS Word?

Some journals (specifically on biology or chemistry) accept only MS Word files as manuscripts, while many journals on mathematics or physics prefer LaTeX. Even Science prefers MS Word. Why do they ...
12
votes
1answer
318 views

Is there any software to regularize British vs. American spelling in a text?

This is a minor but ongoing annoyance that takes up more time than I would like, and I am wondering if anybody knows of a solution. I often write papers with foreign collaborators, and we tend to end ...
4
votes
3answers
333 views

software to organize (1) research questions (2) secondary literature (3) own notes

Is someone aware of software that can help me create certain goals and research (sub)questions (digitally) and connect these questions in an organized way with the secondary literature on my computer, ...
5
votes
1answer
404 views

How can I migrate a library from Calibre to Zotero?

I've got a well organized Calibre library, but due to full text PDF search, web clipping and basic bibliography management, I decided to move to Zotero. I can import .bib records easily, but is ...
21
votes
2answers
349 views

Has the DeWitt Clause, which prevents researchers for publishing DB benchmarks explicitly using a DBMS name, ever been successfully defended in court?

Several commercial database vendors include an end-user license agreement provision, known as the DeWitt Clause, that prohibits researchers and scientists from explicitly using the names of their ...
1
vote
1answer
120 views

If a journal publishing an article about a software tool requires the software to be freely available, must the article be open access?

I am interesting in publishing a Bioinformatics software as a paid access article in a journal where they have open access as well as paid access options (Oxford's Bioinformatics). But it stated at ...
4
votes
1answer
172 views

“Internal” license for group software?

I have a question about the use and attribution of internal software tools. We have a model in our group that is very popular and has formed the basis of many student projects and publications. It ...
17
votes
3answers
364 views

Should I cite all R packages I used?

Intro: R is a open-source software tool for statistical analyses and graphics, which is heavily used in different science disciplines and which is becoming more and more popular (although it is ...
9
votes
2answers
872 views

Using proprietary software to demonstrate work in conference

I am going to conduct a workshop on my research work and for that I need to show how it is done on the software. I want to know, Is it ok to display the proprietary software (through TeamViewer) ...
1
vote
2answers
148 views

Should I publish my software independently or publish it along with a case study in higher journal?

I have built a software that handles protein clustering data in specific format. It is able to draw several plots on that basis along with many other analyses. It has more options than its existing ...
1
vote
3answers
176 views

Heard of Chamber of Chartered Java Professionals International?

I'm Java course which they said to me that they can arrange a Bachelor's degree from "The Chamber of Chartered Java Professionals International." I did a little research my own, and from what I can ...
8
votes
2answers
299 views

How does copyright work on screen captures?

I am writing an article comparing three pieces of software. I have taken screen shots of all of them and would like to use them in a non-open access article. Given the intended journal, there is a ...
10
votes
1answer
206 views

How to handle disagreement between collaborators on licensing academic code?

A group of students including myself have developed a certain program/algorithm. I as the main coder behind this group have provided 95% of all the actual code. The other two involved parties have ...
2
votes
2answers
3k views

How to find a university without min. GPA requirement for Master degree (any state/US)? [closed]

I am an international student who is able to self-finance his master degree education in the US. I looked at a relatively big number of schools that offer a master degree in software engineering and ...
2
votes
2answers
176 views

What software license allows me to have GPL for academic use and paid use by industry for my open-source project?

I have spend many years during my PhD developing a code base and decided to open-source the code when I finished. It's currently under GPL. The code is used by many different research group around the ...
101
votes
10answers
8k views

Why are papers without code but with results accepted?

I just started reading some papers (Computer Science, specifically Computer Vision) and thought "now let's look at the source code" and was quite astonished that most of the papers don't have any ...
15
votes
2answers
296 views

Can graphics created with Wolfram Mathematica be freely used and distributed?

This is just a simple question. I would like to know if one can use graphics generated by Mathematica (for example, plots) in one's paper and then upload that paper anywhere on the internet. I would ...
26
votes
4answers
3k views

Is it mandatory to include the registered trademark symbol ® next to the name of a computer program?

Suppose you write a paper and you use Wolfram Mathematica to do calculations. In the article, should the program be mentioned as "Wolfram Mathematica" or "Wolfram Mathematica®" (with the "registered ...
1
vote
0answers
61 views

Reference management software that allows users to build their keyword synonym list [on hold]

Do you know of any reference management software other than Reference Manager which allows users to create keyword synonym groups (e.g. aspirin=acetylsalicylate) and use them to retrieve references ...