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New Coffee Lectures in the fall semester 2023/24

Missed the Coffee Lecture? Watch the recording on Youtube ▶️

Unterlagen & Folien von vergangenen Coffee & Sweets:

https://chat.openai.com/

Pros:

• Great tool for reflecting on a topic and to get ideas, and to identify knowledge gaps.

• It can summarize, paraphrase or generate text.

• It is able to generate working code for various programming languages (including comments on the code functions)

• It is possible to stick to a conversation topic and iteratively improve the result of the chat.

• It is easy to use: One sentence is enough to start a conversation.

Cons:

• ChatGPT does not understand, it only simulates an understanding.

• GPT-3 cannot search the internet. It can only work with the data it was trained with (up to 2021), so information can be outdated. OpenAI warns about this.

• It will fake content to fill the gaps. Search strategies created by ChatGPT contain invented index terms and wrong syntax; references provided by ChatGPT are mostly false. OpenAI warns about this.

• Sensible information should not be entered in the conversation, because ChatGPT learns also from user input. It might incorporate information provided by the user, and the consequences are hard to foresee. OpenAI warns about this.

https://elicit.org/

It is a search tool that uses machine learning models to help researchers generate ideas for topics and retrieves a small set of papers for review. In its current version, there are two main workflows: one where you can upload PDFs, and one where you can perform a search query. It does not recognize advanced search syntax (i.e. truncation), therefore you can search with a research question or place your main concepts.Elicit is helpful to identify papers on a topic, without being overwhelmed with the number of results.  You can explore possible directions for a topic, and find similar papers based on PDFs. Search results can be saved and exported. Keep in mind this tool is not appropriate to conduct a full systematic/scoping review project since these projects require a robust level of evidence for decision-making and patient care. Additionally, current reporting and conducting guidelines require searches to be transparent and comprehensive.

This tool is a great starting point for literature research. More information on usage, privacy, and limitations can be found via https://elicit.org/faq

https://www.rayyan.ai/

Rayyan is a helpful screening tool that has many useful features even in the free version: Up to 3 reviews can be processed, with unlimited reviewers - blinded or unblinded. References are de-duplicated and inclusion and exclusion criteria can be entered to facilitate screening. The paid version adds many AI-based features. The only downside: The interface is a bit outdated.

https://asreview.nl/

ASReview is an open source, transparent, and educational tool for screening articles' title and abstract. The tool also helps you to understand the technology behind its work. AsReview utilizes active learning to prioritize articles for screening based on relevance. However, it does require a little extra effort for installation with Python. 

https://www.researchrabbit.ai/

Strengths
Research Rabbit is a great tool for finding more articles if you are struggling to identify enough citations to begin your search. When you add useful articles that have already been identified, Research Rabbit will show a list of similar articles as well as a mind map of how the articles are connected. This can be good if you are struggling to identify key articles or key phrases as the search will return items with different vocabulary unlike PubMed. You can also use Research Rabbit for forward and backwards citation searching and look for citation connections between the papers you have already identified to see if there is a common paper between your already identified citations.

Weaknesses
There are limited filters and options the search results can not be reduced using common filters such as date of publication or publication type. The forward citation results are not perfect and may be missing some papers that have cited the research you have identified.

https://consensus.app/

Consensus is nice for a naive search before jumping into the research topic. Ask a question in natural language and the tool shows you research papers that talk about it or answer your research question. So you get an overview of the scientific sources without having to set up a search strategy. In the BETA version, the papers are analyzed for consensus. A percentage bar shows how many papers support the hypothesis and how many don't. This gives you a good overview of your research question and whether it's worth investigating further. Consensus even tells you how the papers and answers are found. But be careful : this tool is good to explore the research question superficially and get some key papers, but it doesn't replace a thorough search.

AI-based writing tools can be categorised based on what they do, for example, generative AI tools (such as ChatGPT) generate text, paraphraser AI tools (such as Writefull) rewrite text. We have listed these categories below, along with some of the risks of using these tools indiscriminately and without appropriate training. While AI tools can help produce text quickly, this text is generic, ineffectively structured, and, in many instances, factually incorrect. The quality of the output depends more on the user’s experience, knowledge, and training than on the tool’s functionality. Therefore, we cannot recommend any one tool in any of the categories as the best of its class.

We strongly advise academic writers, especially new writers and those with less experience, to use AI tools cautiously and in moderation. Writing well is hard because writing is intertwined with thinking. Both our writing and thinking become clearer as we work on making our sentences more effective and our paragraphs more coherent. We urge all writers to make the effort to read a lot and to write a lot to improve their ability to synthesize evidence, summarize it, and communicate it. We ask them to not fall into the trap of accepting AI-generated texts that simply “sound good.” We insist that they use AI tools only if they are certain of what high-quality academic writing should look like.

➜ Download R
➜ User-friendly surface for R: Download R Studio
➜ E-Book: Angewandte Statistik, Methodensammlung mit R (deutscher Volltext im Uninetz)
➜ First steps: Erste Schritte in R (English)

Documentation and installation: Anaconda Individual Edition

SciFlow makes it easy to write and format scientific texts - whether for a specific journal or as a student paper. SciFlow also offers attractive templates, chat support, webinars and text checking. The University Library of Bern has licensed SciFlow for the entire UniBE campus. Further information

➜ Download LaTeX
➜ E-Book: Das Textverarbeitungssystem LaTeX (German fulltext within the UniBE network)
➜ E-Book: LaTeX Beginner's Guide, Leitfaden für Einsteiger, S. Kottwitz, 2011 (Fulltext within the UniBE network)

Access PlagScan: University of Bern plagiarism checking portal

Tools for literature searching in natural science

Have also a look at

• Einführungskurse in Literaturrecherche auf das Kursangebot der UB Bern.
• For group courses and one-to-one teaching in literature search in the sciences, please contact frnat@ub.unibe.ch.

These programs enhance easy and correct citing:
Courses for citation management with various programs are offered by the university library

Download Mendeley Desktop und Einrichten eines Mendeley Accounts (free of charge; all operating systems)

Download Zotero: free of charge; all operating systems. Use your unibe-email in order to get more storage space.

Registration for online version; Endnote Basics (free, limited functionality; Windows und Mac). An Endnote full version is available at the Software Shop of the UniBE at a reduced rate.

Download BibTeX (fee of charge; to use with LaTex).
BibTeX user interface with convenient functionality (free; for OS X)

Members of the University of Bern can use the campus licence for citativi or they get a licence at discounted rate at the Softwareshop.

You got references from different databases and you need to deduplicate them? The AI-powered deduplication tool Deduklick has been developed in collaboration with the Medical Library Bern.

Distinguish yourself in research! ORCID (Open Researcher and Contributor ID) is a unique identifier for academic authors.
➜ Register for your own ORCID.

➜ Altmetric Explorer
➜ different Altmetric tools
➜ Screencast about Altmetric (Coffee Lecture of November 2021)

Create Professional Science Figures in Minutes. Browse thousands of pre-made icons and templates from more than 30 fields of life sciences.
https://app.biorender.com/portal/ub (Acess via Switch Edu-ID). Introduction video.

➜ Informationen on Prezi.
➜ EBook: Powerpoint und Prezi - sehr gut präsentieren (Fulltext within UniBE network)