BH 2023 blogpost

content/news/2023-11-06-biohackathon/index.md

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+---
+title: ELIXIR Biohackathon in Barcelona
+date: '2023-30-10'
+tags: [training, hackathon]
+supporters:
+- elixir
+location:
+  name: Barcelona, ES
+subsites: [eu, freiburg]
+main_subsite: freiburg
+---
+
+![biohackathon logo](./bhlogolightnotx.png)
+
+
+ELIXIR organized last week (October 30th - November 03th, 2023) the [BioHackathon](https://biohackathon-europe.org/index.html) in Barcelona. Paul and Björn went there in Person and represented the Galaxy Freiburg team. The event was a total blast: 5 days in a remote area to work, code, have fun, eat and discuss with the 150 other participants from all Europe (even Australia)!
+
+# Community interaction
+
+We discussed and contributed to many projects: 
+- [Project 16: Enhancing the image analysis community in Galaxy](https://github.com/elixir-europe/biohackathon-projects-2023/tree/main/16) 
+    - While we're at it, we also added a interactive table for the [Image analysis community](https://galaxyproject.github.io/galaxy_tool_extractor/imaging/) as described below.
+- [Project 6: BioModelsML: Building a FAIR and reproducible collection of machine learning models in life science and medicine for easy reuse](https://github.com/elixir-europe/biohackathon-projects-2023/tree/main/6)
+- Table tennis double team champion.
+
+# Project 20: Genome annotation and other post-assembly workflows for the tree of life
+
+In this project, we have assessed the performance of multiple Genome Annotation tools and workflows for various test organisms: Human chromosome 19 (HG38), Drosophila melanogaster, Sponge (Phakellia ventilabrum)
+Butterfly (Helleie helle), Shamrock (Trifolium dubium), Snail (Melampus), Coral (Pocillopora meandrina). We used tools like Braker3, Maker, Busco, Funannotate, Helixer, RepeatModeller, Eggnog, InterproScan and also included our annotations
+in a shareable JBrowse instance. During the workshop the need for [RepeatExplorer](http://repeatexplorer.org) emerged so we integrated it into Galaxy as well - thanks to Petr Novak and ELIXIR CZ and Thomas Harrop from the
+Australian Biocommaons. Check out the [RepeatExplorer on Galaxy](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/gga/repeatexplorer_clustering/repeatexplorer_clustering/2.3.8+galaxy0).
+
+For more information, please check out our new blog post about general updates about the Galaxy Genome Annotation community https://galaxyproject.org/news/2023-10-30-gga-update and join us on [Matrix](https://matrix.to/#/#galaxy-genome-annotation_Lobby:gitter.im).
+
+
+# Project 25: Increasing the findability, visibility, and impact of Galaxy tools for specialised scientific Communities
+
+Paul was the co-lead for [Project 25: Increasing the findability, visibility, and impact of Galaxy tools for specialised scientific Communities](https://github.com/elixir-europe/biohackathon-projects-2023/tree/main/25) together with Nicola Soranzo and Johan Gustafsson. Bérénice participated online and was a great support. Matúš Kalaš helped with the connection to bio.tools and EDAM. 
+
+## Project Workflow
+
+The project could successfully implement a pipeline that collects galaxy tool wrappers, adds metadata from various sources, and filters the tools for a specific Galaxy community.
+
+![project flowchart](./flowchart_paper.png)
+
+The generated tool list is then transformed into an interactive table, that can be embedded in e.g. hub pages and subdomains or here:
+
+<iframe
+  id="inlineFrameExample"
+  title="Microbial related tools"
+  width="100%"
+  height="600"
+  frameBorder="0"
+  src="https://galaxyproject.github.io/galaxy_tool_extractor/microgalaxy/">
+</iframe>
+
+## Crowd-sourced tool annotation
+
+Furthermore, a crowd-sourced effort was made to improve the bio.tools annotation of the microGalaxy tool selection.
+Thanks to a dedicated and motivated group and the help of many people, especially the Australian outpost guided by Johan Gustafsson, the annotation effort was a great success with more then 50 tools annotated.
+We're currently writing a paper to summarize the results of this project. More information can be found in the [GitHub Project Repository](https://github.com/galaxyproject/galaxy_tool_extractor). A demo of the interactive table is hosted via the [Github Pages](https://galaxyproject.github.io/galaxy_tool_extractor/) for all the tools and for the  [microGalaxy community](https://galaxyproject.github.io/galaxy_tool_extractor/microgalaxy/). 
+
+# Fun time
+
+And we had an overall great time joining the sport events, escape game and amazing food ! 
+
+![Beach](./p01_x.jpg)
+
+![Food01](./p02_x.jpg)
+
+![Food02](./p03_x.jpg)
+
+![Food03](./p04_x.jpg)