BiaPy @BiaPyX

BiaPy: Accessible deep learning on bioimages biapyx.github.io Donostia-San Sebastián, Spain Joined January 2024

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BiaPy @BiaPyX

8 months ago

This is a new step for accessible, FAIR bioimage AI 🚀 Try the tool 👉 imaging.usegalaxy.eu/?tool_id=tools… Contribute your models 🧑‍🔬 And join the community making bioimage analysis open & reproducible! #BiaPy #GalaxyProject #BioImageAnalysis #Bioimaging

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BiaPy @BiaPyX

8 months ago

🤝 And there’s more! Thanks to this integration, you can also tap into the 🦒 BioImage Model Zoo 🧬. Pretrained models can now be run straight through Galaxy with BiaPy, bringing community AI models to your data in just a few clicks. #BioImageModelZoo #OpenScience

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BiaPy @BiaPyX

8 months ago

🚀 Big news: BiaPy meets Galaxy! ⛴️🤝🌌 You can now run BiaPy directly inside Galaxy, making deep learning for bioimage analysis easier, reproducible & accessible to everyone. 👉 imaging.usegalaxy.eu/?tool_id=tools… #BioImageAnalysis #GalaxyProject #AI4Life #Bioimaging

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BiaPy @BiaPyX

a year ago

🙏 Thanks to @naturemethods, @rita_strack , the reviewers, and the awesome bioimage analysis community. We can't wait to see what you build with BiaPy! 🚀🧠 🔗 nature.com/articles/s4159… #BiaPy #BioimageAnalysis #DeepLearning (7/7)

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BiaPy @BiaPyX

a year ago

🔗 Want to try BiaPy? Check out the full documentation and tutorials here: 👉 biapy.readthedocs.io 👉 youtube.com/@BiaPyX Contribute, test, and join the community — BiaPy is open source! (6/7) #OpenScience #Microscopy #AI

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BiaPy @BiaPyX

a year ago

🚀 Excited to share that our work on BiaPy has been published today in Nature Methods! BiaPy makes deep learning accessible for bioimage analysis, from small datasets to terabyte-scale 3D images. 👇(1/7) 🔗 nature.com/articles/s4159… #DeepLearning #BioimageAnalysis #BiaPy

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Ignacio Arganda-Carreras @IgnacioArganda

2 years ago

and 4⃣, on Friday at 10:45am (Sala Toledo), I will be presenting the history and current state of @BiaPyX with my talk "BiaPy: Bioimage Analysis workflows for all audiences", see you all there! 😊

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Ignacio Arganda-Carreras @IgnacioArganda

2 years ago

3⃣ Tomorrow after lunch (16.15h – 17.15h, Workshop rooms), @ArrateMunoz @Lenka_Backova @AAitorG and I will give a community workshop on @BiaPyX , our deep learning library and application for #BioImageAnalysis #SPAOM2024 x.com/SPAOM5/status/…

SPAOM @SPAOM5

2 years ago

The SPAOM 2024 Community Workshops are here! 🚀 Join us for hands-on sessions with experts, cutting-edge techniques, and the latest in optical microscopy and imaging. 🔬 🔗 Learn more and register: SPAOM2024.org Don't miss out on this incredible opportunity #SPAOM2024

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BiaPy @BiaPyX

2 years ago

BiaPy ⛴️ will be at SPAOM24 in Toledo twice! We'll lead a community workshop (Day 2) and @IgnacioArganda will give an invited talk (Day 3) about our library and application ☺️ See you all there! #SPAOM2024

SPAOM @SPAOM5

2 years ago

And we made it to the news: europapress.es/castilla-laman…. We can't wait to see you next week! See you in Toledo.

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BiaPy @BiaPyX

2 years ago

🆕 We have updated our preprint in @biorxivpreprint 📰 It explains better the current state of #BiaPy ⛴️ while describing as well its limitations 🤗 Hope you like it! "BiaPy: Accessible deep learning on bioimages" biorxiv.org/content/10.110…

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BiaPy @BiaPyX

2 years ago

🚀 For a fast overview on how to reuse models from the @bioimageio zoo 🦒in our notebooks 📒 (including exporting them too), check our video "BiaPy: Import & Export BioImage Model Zoo models in Notebooks" youtu.be/R0Li3tZ7Ryc?si… via @YouTube by @IgnacioArganda

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BiaPy @BiaPyX

2 years ago

3⃣ and of course, programmatically 🤓 by editing the YAML configuration file. We have a dedicated page in the documentation 📚 that explains the whole process in all three cases: biapy.readthedocs.io/en/latest/get_…

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BiaPy @BiaPyX

2 years ago

2⃣ from the notebooks, by listing 📒 all available models compatible with your task, then selecting the 🦒 zoo as model source, and finally introducing the nickname of the model that best fits your needs:

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BiaPy @BiaPyX

2 years ago

Would you like to use a model from the @bioimageio zoo 🦒 as core model of your BiaPy ⛴️ workflow? No worries! You can easily do that either 👇 1⃣ from the GUI 🖥️, specially if you follow the instructions of our friendly wizard 🪄🧙‍♀️

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BiaPy @BiaPyX

2 years ago

📒 Our code-free notebooks are designed to be self-explainable and (hopefully 🤞) easy to use and follow. Nevertheless, in case you feel overwhelmed by them, you can have a look at our walkthrough video on BiaPy Notebooks youtu.be/KEqfio-EnYw?si… via @YouTube by @IgnacioArganda