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+---
+title: "GloBIAS seminar series - Image analysis using Galaxy"
+tease: "Galaxy Image Analysis was presented at the GloBIAS seminar series"
+date: '2025-03-03'
+authors: "Riccardo Massei"
+tags: [fair, imaging, pipelines, workflow]
+subsites: [all-eu, global, us]
+main_subsite: eu
+---
+
+## The GloBIAS BioImage Analysis (BIA) seminar series
+
+The primary goal of the [GloBIAS seminar series](https://www.globias.org/activities/bia-seminar-series) is to provide a dynamic platform for 
+bioimage analysts, enabling the community to stay up to date with the latest
+developments in the field and foster community interactions.
+The seminars are designed to cater to intermediate and advanced analysts, 
+focusing on practical, high-level content that extends beyond basic 
+instruction.
+
+On the 26th of February, **Beatriz Serrano-Solano**, **Anne Fouilloux**, **Leonid Kostrykin** and 
+**Riccardo Massei** held the webinar **"Image analysis using Galaxy"** where they introduced the [Galaxy Image Analysis Community](https://galaxyproject.org/community/sig/image-analysis/) and highlighted
+its mission to advance the development of FAIR and reproducible image analysis workflows.
+
+## Galaxy as a web-based, accessible, reproducible, and transparent platform for image analysis
+
+The seminar began by exploring Galaxy's capabilities in integrating popular image analysis tools, interactive 
+environments, and notebooks, making it a versatile web platform for image processing. An overview of existing 
+imaging tools, the web-based user interface, and the workflow 
+construction was provided to the seminar attendees. This included giving 
+a feel for the potential use of Galaxy in image processing and analysis. Additionally, 
+an overview of the training materials and the [Galaxy Training Network](https://training.galaxyproject.org/training-material/topics/imaging/) was given.
+
+![img.png](img.png)
+
+## Galaxy live demos
+During the live demonstration, a showcase of various Galaxy features for image analysis took place.
+
+First, a workflow for basic image analysis tasks was demonstrated, including image preprocessing and image enhancement, segmentation, and feature extraction. [This workflow](https://training.galaxyproject.org/training-material/topics/imaging/tutorials/imaging-introduction/tutorial.html) illustrated how to utilize 
+Galaxy tools to interactively create a reproducible image analysis pipeline, save it, and re-execute 
+it in a reproducible manner on a large number of images.
+
+Next, the same analysis was repeated using [Jupyter Notebook as an interactive tool](https://training.galaxyproject.org/training-material/topics/galaxy-interface/tutorials/jupyterlab/tutorial.html) within Galaxy. 
+The demonstration showed how a similar analysis can be performed outside of a workflow by simply 
+using an interactive tool within Galaxy. This included installing Python libraries suitable for the 
+analysis and converting the final output to a OME-Zarr format.
+
+Finally, the live demonstration concluded by highlighting the integration of image data management
+and interactive visualization in Galaxy. The features of the [OMERO-suite](https://training.galaxyproject.org/training-material/topics/imaging/tutorials/omero-suite/tutorial.html) were showcased, which merges 
+image analysis with data management by automatically transferring images to a target OMERO server.
+Additionally, the possibility to visualize data directly from [IDR](https://idr.openmicroscopy.org/) using the recently developed Vizarr
+tool was demonstrated.
+
+## Session wrap-up
+In the final wrap-up, the audience showed high interest in the webinar by asking questions
+in the chat were they were actively answered by the speakers. An overview on the Q&A was shared 
+and posted on [image.sc](https://forum.image.sc/t/globias-bioimage-analysis-seminar-series-image-analysis-using-galaxy/109386).
+
+The full presentation is available on [Zenodo](https://zenodo.org/records/14944040).