It's great to be at #I2K2024 #i2k and see all the other people in bioimage analysis.
If you're interested in OME-Zarr or what we're doing with Fractal, stop by my poster today! :)

The hackathon is organized by the BioVisionCenter (@vuhlmann , Lorenzo Cerrone, Ethel Mendocilla Sato & me), @joshmoore , Christian Tischer from EMBL, CEITEC's Vladimir Ulman, @normanrz & @perlman

This year, the hackathon will happen in the context of the Zarr V3 transition and how we best manage this. Main topics will include OME-Zarr in Java, OME-Zarr in the Python ecosystem, OME-Zarr workflows & more. Learn more about the program here: https://biovisioncenter.notion.site/OME-NGFF-Workflows-Hackathon-2024-dde32a032adf49b4a53b4b014586b678

We have structured the hackathon to have 3 core days from Tuesday - Thursday, with the option to attend a (TBD) Monday afternoon program & an extra hacking day for Friday for super motivated people.

(2/3)

I'm very excited to announce the #OME_NGFF_workflows_hackathon for November 18th - 22nd at the BioVisionCenter in Zurich, Switzerland.
Sign up here: https://ema.uzh.ch/en/register/ome-ngff-workflows-hackathon-2024.html

This event is a follow-up to last year's successful hackathon, where 45 researchers and developers pushed the boundaries of next generation bioimage formats, processing & workflows. Learn more about last year's event here: https://forum.image.sc/t/outcomes-of-the-next-generation-bioimage-analysis-workflows-hackathon/88733

(1/3)

And cc the people involved in the Fractal development in the @priscaliberali lab and the Pelkmans lab, especially Gustavo!

None of that would be possible without the great #OMENGFF community! It's been great getting to know more & more people on this latest #OMENGFF paper. A very special thanks to @joshmoore for coordinating this paper and for all the work on #OMENGFF ! 👏👏👏
(4/5)

It's amazing to see all the things that have been built on OME-Zarr in the last year! Our contribution to it is Fractal, an open-source software for processing high content imaging data in the OME-Zarr format (currently in an alpha state): https://fractal-analytics-platform.github.io (3/5)

One thing that shows just how fast the community is moving: I only learned about #OMEZarr a bit more than a year ago with the Nature methods paper on #OMENGFF, which convinced me that this was the way forward: https://www.nature.com/articles/s41592-021-01326-w
(2/5)

Super happy that the preprint for the #OMEZarr paper is out now! If you want to know where bioimage analysis is going: I think this will be the direction! Standardization & open source for the win!

Find the #bioRxiv preprint here: https://www.biorxiv.org/content/10.1101/2023.02.17.528834v1

And Josh's main thread about it here: https://fediscience.org/@joshmoore/109904124384328635

Thread (1/5)

Latest report from the #OMENGFF #Community describing #OMEZARR, a #CloudOptimized #BioImaging #DataFormat, is out now on #bioRxiv!

If you are having trouble with big, slow, or otherwise unwieldy imaging data, reach out or take a look for a #FAIR-er option.

https://www.biorxiv.org/content/10.1101/2023.02.17.528834v1