Merge pull request #10 from ScaDS/8-add-examples-and-excercises-to-th…

…e-docs

8 add examples and excercises to the docs

docs/links.md

@@ -0,0 +1,9 @@
+# Links to resources mentioned in the training
+
+- [Event page](https://events.hifis.net/event/1892/)
+- Policies
+  - [Statement by the Executive Committee of the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) on the Influence of Generative Models of Text and Image Creation onScience and the Humanities and on the DFG’s Funding Activities](https://www.dfg.de/resource/blob/289676/89c03e7a7a8a024093602995974832f9/230921-statement-executive-committee-ki-ai-data.pdf)
+  - [Helmholtz Recommendations on the Use of Artificial Intelligence](https://www.helmholtz.de/assets/helmholtz_gemeinschaft/Downloads/Helmholtz_Recommendations_on_use_of_AI_Version_1.0.pdf)
+- Resources
+  - [AI for students](https://aivoorstudenten.be/en/courses/ai-voor-studenten/)
+  - [UFZ RDM Guidelines: AI for science](https://rdm.pages.ufz.de/guidelines/AI-for-science/)

docs/myst.yml

@@ -34,20 +34,24 @@ project:
     - file: exercise1/prompt_templates.md
     - file: exercise1/Optional_Programming_DMP_generation.ipynb
 
-  - title: "Session 2: Ethical use of AI"
+  - title: "Session 2: Good Scientific Practice and Ethical use of AI"
     children:
-    - file: exercise2/readme.md
+    - file: session2/readme.md
 
-  - title: Optional programming exercise  
+  - title: "Session 3: Tools and Exercises"
+    children:
+    - file: session3/introduction.md
+    - file: session3/exercise.md
+
+  - title: "Optional programming exercise"  
     children:
     - file: exercise3/readme.md
     - file: exercise3/chatbot_explained.ipynb
     - file: exercise3/gui.ipynb
 
   - title: Links
     children:
-    #- url: https://events.hifis.net/event/1892/
-    #  title: Event page
+    - file: links.md
     #- url: https://zenodo.org/records/...
     #  title: Download Slides
     - file: imprint.md

docs/session2/readme.md

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+# Introduction
+
+Session 2 

docs/session3/exercise.md

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+# Exercise(s) 2: A potpourri of scientific use cases
+
+For each of the following exercises, pls. evaluate the service in regard to the
+suitability for your individual research and for science in general. Also,
+provide a brief summary of your experience in general.
+
+We prepared a [collaborative document for this exercise]() where you can share
+your experience with the others.
+
+Feel free to also try out other tools mentioned in [our overview](introduction.md)
+and other tasks as well.
+
+## Brainstorming with GenAi - Overcome writer's block
+
+This prompt can help you get past so-called writer’s block by offering you some
+ideas that can inspire you to start your assignment:
+
+```
+Take on the role of an expert in brainstorming. I want you to help me
+brainstorm on the theme [insert theme]. Take the role of a brainstorming expert
+in this area. Ask me what task I want to brainstorm about and what goal I want
+to achieve. Then, give me concrete ideas and explain why each one is a good idea
+in relation to the goal. Ask me if everything is clear enough or if I would like
+to expand on any of the ideas.
+```
+
+0. Optional: Register for the GenAI of your choice
+1. Try it out with a GenAI of your choice
+2. Try it out with several GenAIs and compare results and the process to get there
+
+(Source: https://aivoorstudenten.be/en/courses/ai-voor-studenten/lessons/brainstormen-2/)
+
+## Mindmap from PDFs with Claude.AI
+
+0. Register at <https://claude.ai/>
+1. Upload the PDF downloaded from https://doi.org/10.1080/02602938.2024.2386662 to Claude.
+2. create a Mermaid code visual based on the themes addressed in the attached article.
+3. Copy the resulting code to https://mermaid.live/edit
+
+(Based on <https://aivoorstudenten.be/en/courses/ai-voor-studenten/lessons/visualiseren/>)
+
+## Literature search with Consensus
+
+0. Optional: Register at <https://consensus.ai/>
+1. Ask a research question of your choice or choose one of the suggested questions

docs/session3/introduction.md

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+# Tools for the everydays research routine
+
+In this session, we will explore a variety of AI-powered tools that can be used in the everyday research routine. These tools can help researchers to discover relevant research papers, analyze and summarize scientific literature, and visualize complex data. By leveraging AI technology, researchers can gain new insights, identify key trends, and make more informed decisions in their research.
+
+(generated with GitHub Copilot)
+
+## Perplexity
+
+[Perplexity](https://perplexity.ai/)
+
+Perplexity is a platform that uses AI to provide answers to complex questions. In the context of science, Perplexity can be used to find relevant information and insights from a vast amount of scientific literature. It can help researchers and students to quickly grasp the core concepts and findings of a research area. Additionally, Perplexity can assist in identifying gaps in current knowledge and suggesting new research directions.
+
+* Input formats
+  * Natural language queries
+  * Text files
+  * URLs
+
+* Output formats
+  * Plain text
+  * JSON
+  * CSV
+
+## Researchrabbit
+
+[Researchrabbit](https://researchrabbit.ai/)
+
+Researchrabbit is an AI-powered tool for discovering relevant research papers and academic articles. For scientists, Researchrabbit can be a valuable resource for staying up-to-date with the latest research in their field. It can also help researchers to find relevant studies and data to support their own research. Researchrabbit's algorithms can identify patterns and connections between papers, making it easier to identify key themes and trends in a research area.
+
+* Input formats
+  * Keywords
+  * Authors
+  * DOIs
+  * PDFs
+
+* Output formats
+  * Bibliographic citations
+  * Abstracts
+  * Full-text PDFs
+  * CSV
+
+## Scholarcy
+
+[Scholarcy](https://www.scholarcy.com/)
+
+Scholarcy is a platform that uses AI to summarize and analyze research papers. In the scientific community, Scholarcy can be used to quickly understand the main findings and contributions of a research paper. It can also help researchers to identify relevant papers and authors, and to visualize the connections between different studies. Scholarcy's analytics tools can provide insights into the impact and relevance of research papers.
+
+* Input formats
+  * PDFs
+  * DOIs
+  * Titles
+  * Authors
+
+* Output formats
+  * Summarized text
+  * Key points
+  * Figures and tables
+  * CSV
+
+## Undermind
+
+[Undermind](https://undermind.io/)
+
+Undermind is a platform that uses AI to analyze and visualize complex data. In the context of science, Undermind can be used to identify patterns and relationships in large datasets. It can help researchers to gain insights into complex phenomena and to identify new areas of study. Undermind's visualization tools can also facilitate communication and collaboration among researchers.
+
+* Input formats
+  * CSV
+  * JSON
+  * Excel files
+  * Databases
+
+* Output formats
+  * Interactive visualizations
+  * Static images
+  * CSV
+  * JSON
+
+## Elicit
+
+[Elicit](https://elicit.org/)
+
+Elicit is an AI-powered tool for analyzing and summarizing research papers. For scientists, Elicit can be used to quickly grasp the main findings and contributions of a research paper. It can also help researchers to identify relevant papers and authors, and to visualize the connections between different studies. Elicit's algorithms can identify key themes and trends in a research area.
+
+* Input formats
+  * PDFs
+  * DOIs
+  * Titles
+  * Authors
+
+* Output formats
+  * Summarized text
+  * Key points
+  * Figures and tables
+  * CSV
+
+## SciSpace
+
+[SciSpace](https://scispace.net/)
+
+SciSpace is a platform that uses AI to provide insights into scientific research. It can be used to analyze and visualize research papers, authors, and institutions. SciSpace's algorithms can identify patterns and connections between papers, making it easier to identify key themes and trends in a research area. Additionally, SciSpace can provide metrics and analytics to evaluate the impact and relevance of research papers.
+
+* Input formats
+  * PDFs
+  * DOIs
+  * Titles
+  * Authors
+
+* Output formats
+  * Bibliometric analysis
+  * Co-authorship networks
+  * Institutional profiles
+  * CSV
+
+## Consensus
+
+[Consensus](https://consensus.ai/)
+
+Consensus is an AI-powered platform for analyzing and synthesizing research findings. In the scientific community, Consensus can be used to identify areas of agreement and disagreement among researchers. It can help to identify key themes and trends in a research area and to provide insights into the current state of knowledge. Consensus's algorithms can also identify gaps in current knowledge and suggest new research directions.
+
+* Input formats
+  * Research articles
+  * Conference proceedings
+  * Books
+  * Expert opinions
+
+* Output formats
+  * Consensus statements
+  * Confidence scores
+  * Evidence maps
+  * CSV
+
+## Connected Papers
+
+[Connected Papers](https://www.connectedpapers.com/)
+
+Connected Papers is a platform that visualizes the connections between research papers. For scientists, Connected Papers can be used to identify relevant papers and authors, and to understand the relationships between different studies. It can help researchers to quickly grasp the main findings and contributions of a research paper and to identify key themes and trends in a research area.
+
+* Input formats
+  * DOIs
+  * Titles
+  * Authors
+  * Keywords
+
+* Output formats
+  * Interactive graph
+  * Node list
+  * Edge list
+  * CSV
+
+## Litmaps
+
+[Litmaps](https://litmaps.co/)
+
+Litmaps is a platform that uses AI to create interactive maps of research papers and authors. In the context of science, Litmaps can be used to visualize the connections between papers and authors, making it easier to identify key themes and trends in a research area. Litmaps's algorithms can also identify gaps in current knowledge and suggest new research directions.
+
+* Input formats
+  * DOIs
+  * Titles
+  * Authors
+  * Keywords
+
+* Output formats
+  * Interactive map
+  * Node list
+  * Edge list
+  * CSV
+
+## Petal
+
+[Petal](https://petal.io/)
+
+Petal is an AI-powered platform for discovering and analyzing research papers. For scientists, Petal can be used to quickly find relevant papers and authors, and to understand the relationships between different studies. Petal's algorithms can identify key themes and trends in a research area and provide insights into the current state of knowledge. Additionally, Petal can assist in identifying gaps in current knowledge and suggesting new research directions.
+
+* Input formats
+  * Natural language queries
+  * Keywords
+  * Authors
+  * DOIs
+
+* Output formats
+  * Plain text
+  * JSON
+  * CSV
+  * Visualization graphs
+
+## Claude AI
+
+Claude AI is a language model service that allows developers to integrate AI-powered text processing capabilities into their applications. The service provides a range of natural language processing (NLP) features, including text classification, sentiment analysis, and language translation. With Claude AI, developers can build intelligent chatbots, virtual assistants, and other AI-driven interfaces that can understand and respond to human language.
+
+* Input and Output Formats
+  * Input Formats:
+  * Text (plain text, HTML, Markdown)
+  * JSON (for structured data)
+* Output Formats:
+  * Text (plain text, HTML, Markdown)
+  * JSON (for structured data)
+  * XML (for specific use cases)
+
+
+(Generated with "Ministral - 8b" in [BlaBlaDor](https://helmholtz-blablador.fz-juelich.de/))