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Add tools to tool doc page#466

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joshmoore merged 12 commits intoome:mainfrom
lubianat:documentation_updates
Mar 13, 2026
Merged

Add tools to tool doc page#466
joshmoore merged 12 commits intoome:mainfrom
lubianat:documentation_updates

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@lubianat
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@lubianat lubianat commented Mar 4, 2026

  • Add Zarr.NET to tools
  • Add ome-writer and nd2 converter
  • Add mesoSPIM-control to tools
  • Add bia-zarr to tools

Adding a few new tools to the documentation. Pinging @AlanMWatson/@nvladimus, @matthewh-ebi , @tlambert03 , @BiologyTools just to make sure I did not get anything terribly wrong.

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thanks @lubianat!

@lubianat lubianat marked this pull request as ready for review March 5, 2026 17:45
@lubianat lubianat added the documentation Improvements or additions to documentation label Mar 10, 2026
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(last commit closes #470)

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This pull request has been mentioned on Image.sc Forum. There might be relevant details there:

https://forum.image.sc/t/zarr-net-first-release-native-net-library-for-reading-writing-zarr-microscopy-data/119479/9

@will-moore
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Since this PR is open, and I was just struggling to find https://github.com/TissUUmaps/OMEZarrTileSource - maybe that could be added here under viewers?
Thanks!

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Actually, maybe that's more of a library rather than a standalone viewer?

@lubianat
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@will-moore good one (pinging @jwindhager). I could not fit it in one of the boxes, so I put it in "other tools"

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@dominikl @will-moore importing from Slack:

"we should probably have omero-zarr-pixel-buffer listed on the OME-Zarr tools page at https://ngff.openmicroscopy.org/resources/tools/index.html"

Happy to include it here! I am not sure on https://github.com/ome/omero-zarr-pixel-buffer or https://github.com/glencoesoftware/omero-zarr-pixel-buffer as the canonical one to point too, though.

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Thanks @lubianat / @will-moore ! I'm not sure either, ome or glencoesoftware, ome is the more experimental/development repository, glencoesoftware is the stable option. I'd say rather the ome one, because one can see that is a fork of glencoesoftware (your thoughts @jburel ? ), should probably add some more info about this on the ome fork's Readme.

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@dominikl thanks! I've added the ome one for now. We can change it in the future if needed

@will-moore
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@lubianat Apologies, I think we discussed this earlier today and decided it should be the glencoe repo we list here, since that's where we want people to install from.

Then, if devs are interested in contributing, we can redirect them to the ome repo from there. Thanks.

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Leaving @lubianat to revert the specifications/dev bump but otherwise LGTGerBI ;)

@joshmoore joshmoore merged commit bc11974 into ome:main Mar 13, 2026
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6 participants