Author | Lightnews

Sebastian Ayala Ruano

@sayalaruano.bsky.social

28 followers 87 following 8 posts

Bioinformatician & data scientist at DTU Biosustain. #MachineLearning, #NetSci, and #OpenScience enthusiast. 🇪🇨➡️🇩🇰 sayalaruano.github.io

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Sebastian Ayala Ruano @sayalaruano.bsky.social · Jul 21

We developed this software at the MoNA group - tinyurl.com/4ccus8fv, @DTUBiosustain. Check this previous 🧵for more details: bsky.app/profile/saya.... Also, you can find the slides and poster here: doi.org/10.5281/zeno... and doi.org/10.5281/zeno...

MoNA · Multi-omics Network Analytics Group

tinyurl.com

Sebastian Ayala Ruano @sayalaruano.bsky.social · Jul 21

Excited to present VueGen - github.com/Multiomics-A..., a tool to automate the creation of scientific reports, at @bosc.bsky.social ISMB/ECCB in Liverpool!

🗣️ Flash Talk: Mon July 21, 15:25, Room 03A
📌 Poster: Mon July 21, 10-11:20, A-128

Feel free to reach out with any questions!
#bioinfo #dataviz

Poster of the VueGen project in the Bioinformatics Open Source Conference (BOSC) 2025 (as part of ISMB/ECCB 2025) on July 21, 2025

Presentation of the VueGen project in the Bioinformatics Open Source Conference (BOSC) 2025 (as part of ISMB/ECCB 2025) on July 21, 2025

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Sebastian Ayala Ruano @sayalaruano.bsky.social · Jul 20

📢So happy to see this out! Thanks a lot to @albsantosdel.bsky.social and all the amazing people from the MoNA group for making it possible. Check this previous 🧵for more details: bsky.app/profile/saya...

#dataviz #bioinformatics #nextflow #streamlit

Bioinformatics Advances @bioinfoadv.bsky.social · Jul 11

📄 Explore the latest from Bioinformatics Advances: "VueGen: Automating the generation of scientific reports"

Full article available: https://doi.org/10.1093/bioadv/vbaf149

Authors include: @sayalaruano.bsky.social

Sebastian Ayala Ruano @sayalaruano.bsky.social · Mar 7

[5/5] 📦🛠️ VueGen is distributed as a Python package, Docker image, nf-core module, and desktop application. The source code is freely available
on github.com/Multiomics-A... under the MIT license. Documentation is provided at
vuegen.readthedocs.io.

GitHub - Multiomics-Analytics-Group/vuegen: VueGen automates the creation of reports from bioinformatics outputs, supporting formats like PDF, HTML, DOCX, ODT, PPTX, Reveal.js, Jupyter notebooks, and ...

VueGen automates the creation of reports from bioinformatics outputs, supporting formats like PDF, HTML, DOCX, ODT, PPTX, Reveal.js, Jupyter notebooks, and Streamlit web applications. Users simply ...

github.com

Sebastian Ayala Ruano @sayalaruano.bsky.social · Mar 7

[4/5] To showcase VueGen’s functionality, we present two case studies. The first is a basic example with a predefined directory, while the second is an end-to-end example that creates the folder and components using data from the Earth Microbiome Project - earthmicrobiome.org.

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Sebastian Ayala Ruano @sayalaruano.bsky.social · Mar 7

[3/5] 📋🌐 Supported formats include documents (PDF, HTML, DOCX, ODT), presentations (PPTX, Reveal.js), Jupyter notebooks, and Streamlit web applications.

Sebastian Ayala Ruano @sayalaruano.bsky.social · Mar 7

[2/5]📝📊📈With VueGen, users can produce reports by simply specifying a directory containing output files, such as plots, tables, networks, Markdown text, and HTML components, along with the report format.

Sebastian Ayala Ruano @sayalaruano.bsky.social · Mar 7

📢Excited to share the @biorxiv-bioinfo.bsky.social preprint of Vuegen, a tool that automates the generation of scientific reports.

🔗http://tinyurl.com/2p9urafw

We developed this software at the MoNA group -https://tinyurl.com/4ccus8fv, @DTUBiosustain

#dataviz #bioinformatics #nextflow #streamlit🧵

Graphical overview of VueGen’s workflow and components. The diagram illustrates VueGen’s pipeline and report structure, starting from either a directory or a YAML configuration file. If a directory is provided, the software generates a configuration file with the report structure. Reports consist of hierarchical sections and subsections, each containing various components such as plots, dataframes, Markdown, HTML, and data retrieved via API calls. Depending on the file format and report type, components can be static or interactive. Reports can be exported in various formats, including documents (PDF, HTML, DOCX, ODT), presentations (PPTX, Reveal.js), Jupyter notebooks, and Streamlit web applications.

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