iiinova — where your digital self keeps evolving

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Johannes Soltwedel @jo-soltwedel.bsky.social · 12h

Just released the napari-clusters-plotter 0.11.0 github.com/BiAPoL/napar..., a little passion-project of mine for interactive exploration of datasets and attached features in @napari.org Two cool things to take note of 👇

github.com

GitHub - BiAPoL/napari-clusters-plotter: A napari plugin for clustering objects according to their properties.

A napari plugin for clustering objects according to their properties. - BiAPoL/napari-clusters-plotter

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napari @napari.org · 29/09/2026

New blog post: a recap of our latest hackathon, naPLari in Krakow, Poland, this past July! Read why our hackathons are world famous! (With GloBIAS, we've had attendees from every continent except Antarctica!) And give us a follow to make sure you don't miss the next one! napari.org/island-dispa...

Jules Vanaret demonstrates BDV-style non-orthogonal slicing within napari

Developers smiling gather around a laptop to look at a demo.

hackathon participants looking at a phone together at a group dinner

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Marie Held @makaefer.bsky.social · 28/09/2026

Want to enhance your image analysis skills with napari? We’re running a two-day training event on how to use napari to effectively analyse your bioimaging data. 🕒 Applications close on 15 September. Learn more and apply 👇 www.crick.ac.uk/whats-on/cbi...

crick.ac.uk

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napari @napari.org · 26/09/2026

🚀 napari is hiring Remote Developers-in-Residence! Join us to build the future of interactive n-dimensional data visualization in Python. 💻 60% Dev / 20% Maintenance / 20% Community & Outreach ⏱️ Contract, 14–35 hrs/wk 🌍 Global 100% Remote Learn more and apply today: napari.org/island-dispa...

napari.org

We’re hiring Developers-in-Residence! — napari blog documentation

Organization: napari (a NumFOCUS Sponsored Project) Position Type: Independent contractor agreement. Global, 100% Remote. Duration: One year, possibility to extend. Commitment: 0.4 to 1.0 FTE…

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Claire Dessalles @clairedessalles.bsky.social · 23/09/2026

NeMo is finally out! 🐟 We present our new method to peel cellular layers and extract their nematics. If you're wondering what a fish has to do with curved nematics, check out the thread and the publication 👀👇🏼 arxiv.org/html/2609.12...

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Johannes Soltwedel @jo-soltwedel.bsky.social · 23/09/2026

🟦🟦🟦 Less fancy, just as handy: Attaching simple translations to your image tiles allows the #stitching tool of your choice (here: github.com/multiview-st... at work in @napari.org) and just hit "Fuse". Dataset from github.com/JaneliaSciCo...

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Johannes Soltwedel @jo-soltwedel.bsky.social · 23/09/2026

OME-Zarr 0.6 allows to compose multi-modal image data across dimensionalities into a joint dataset and ingest it into a supporting viewer of your choice. Combining image data across scales from µm 🧫 to cm 🧠 and beyond will be much easier now! Dataset source: rodare.hzdr.de/record/3131

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Johannes Soltwedel @jo-soltwedel.bsky.social · 23/09/2026

The main new things in 0.6 are ✨transformations ✨ - adding the "Where" directly to your image data. Some data (e.g., SCAPE microscopy) require a transform to display correctly. View your data correctly, data-duplication free with OME-Zarr 0.6! (UI is WIP, made for @napari.org x napari-ome-zarr)

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Ricardo Henriques @henriqueslab.bsky.social · 15/09/2026

🔬🚀 Out now in Communications AI & Computing: mAIcrobe, our open-source napari plugin for high-throughput bacterial image analysis. Segmentation, morphological profiling and cell cycle classification, all in one place 👇 doi.org/10.1038/s44488-026-00022-y

Screenshot of the published article page. Software, Open access, published 15 September 2026. Title: mAIcrobe, an open-source framework for high-throughput bacterial image analysis. Authors: António D. Brito, Dominik Alwardt, Beatriz de P. Mariz, Sérgio R. Filipe, Mariana G. Pinho, Bruno M. Saraiva and Ricardo Henriques. Communications AI & Computing 1, article number 16 (2026), followed by the abstract.

Diagram of the mAIcrobe workflow. Acquisition feeds into segmentation with StarDist, Cellpose and community models, then into morphological profiling and a three-class cell cycle classifier, ending in a feature-space scatter plot with three separated clusters.

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SWC/GCNU Neuroinformatics Unit @neuroinformatics.dev · 21/09/2026

Our Google Summer of Code participants have been writing up their projects. First up, Anna Teruel-Sanchis who built an interactive GUI in @napari.org for correcting pose estimation tracks directly within the movement framework. Read more in Anna's blog: neuroinformatics.dev/blog/gsoc_20...

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napari @napari.org · 23/09/2026

Thanks for the shout out! 😍 Our goal in writing this blog was to share the (recent) overthinking we've done our typechecking journey to help others. Thank you Aniket for writing this up! Our new triage team truly shined 🌠 on this multi-week process: napari.org/stable/devel...

napari.org

Triage

This guide describes how napari curates its issue trackers and pull requests. A healthy tracker makes the project easier to use and to contribute to: issues are clearly described, duplicates are linke...

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DrLachie @drlachie.bsky.social · 10/09/2026

Proud to present the publication of napari-lattice – our solution to the immense computational requirements of Lattice Light Sheet and Oblique Plane Microscopy. onlinelibrary.wiley.com/doi/10.1111/... Before I get into the thread, the important part is on github: github.com/BioimageAnal... (1/n)

onlinelibrary.wiley.com

napari‐lattice: A user‐friendly image processing tool for lattice light‐sheet microscopy data

Lattice light-sheet microscopy (LLSM) enables researchers to capture high-speed 3D videos of living cells with high definition and minimal damage. However, this technology generates terabytes of data....

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Tamas Nagy @tamasnagy.com · 06/09/2026

Even with all the advancements in automated cell tracking getting us to 90%+ accuracy...that's still a lot of broken tracks over long movies! Our brains are pretty good at this so I made Vizsla 🐕, a little @napari.org plugin, to help you fix your tracks manually. 👉 pypi.org/project/napa...

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napari @napari.org · 26/08/2026

Be sure to check out the full release notes at top! A HUGE thanks to our contributors, including our SciPy and EuroSciPy sprint contributors, our naPLari 🇵🇱 hackathon contributors, and more! Want in on the action? As always, check out our community page! napari.org/stable/commu...

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napari @napari.org · 26/08/2026

Surface layers can now be sliced in 2D, including with thick slicing! This makes it possible to navigate surface data in the 2D view, and supports thick slicing and async slicing, allowing support for large surface layers.

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napari @napari.org · 26/08/2026

One for plugin authors: plugins can now contribute and query preferences from users! No more guessing whether a user wants to open a zarr as a NumPy array or using Dask: just point them to the setting! See the contribution guide here: napari.org/stable/plugi...

napari.org

Plugin contributions

This page provides guides on many of the plugin contribution patterns. Each provides a general overview of the purpose of the contribution and an example implementation. For details on the type and me...

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napari @napari.org · 26/08/2026

You can now take a guided tour of the viewer! This is a great way to get your colleagues started with using napari. Spread the word! 😉 Access the tour from the Help menu, or using the Command Palette (Ctrl/Cmd+Shift+P).

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napari @napari.org · 26/08/2026

Another long-standing issue fixed: for all of napari's history, you could only change settings on a single layer. No more: common controls now show for any selection of layers, and you can then adjust them together! 🤯

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napari @napari.org · 26/08/2026

Using the same infrastructure, you can now just add @xarray.bsky.social DataArrays as images to napari and napari will read the axis labels, scale and translate, and units metadata automagically! This was issue number 14 in the napari repo. We get to stuff eventually! 😅

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napari @napari.org · 26/08/2026

First up: if you add axis_labels to your layers, they will automatically propagate to the viewer! This makes it easier to reason about high-dimensional data, as shown by our friendly FLIM ghost! (Source: www.ebi.ac.uk/biostudies/b...) Check it out yourself with: gist.github.com/jni/d188d977...

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napari @napari.org · 26/08/2026

🚨🚨🚨 napari 0.9.0 is out! 🚨🚨🚨 This is a huge release for us and for our community, with over 30 people contributing new features, improvements, and bug fixes in the 6 weeks since 0.8.0! Release notes here: napari.org/stable/relea... and some highlights in the thread below! 👇

napari.org

napari 0.9.0

Tue, Aug 25, 2026 We’re happy to announce the release of napari 0.9.0! napari is a fast, interactive, multi-dimensional image viewer for Python. It’s designed for browsing, annotating, and analyzing l...

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Sebi @sebi06.bsky.social · 24/08/2026

Hi all, I updated pypi.org/project/czit... (0.21.0) and pypi.org/project/napa... (0.12.1) again. Now in @napari.org also opening large CZI files should work much better when using the plugin. The image shown in the video is about 100 GB on disk.

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napari @napari.org · 20/08/2026

This 0.9.0 release has the most contributors (30+) since napari 0.5.0 and all in barely a month since 0.8.0! 🤩 We are so grateful for our wonderful community of contributors and users, especially those that we met at SciPy, EuroPython, EuroSciPy, their sprints, and our own naPLari Hackathon. 👏

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napari @napari.org · 20/08/2026

We would especially like folks to test the layer controls section when multiple layers are selected (it now works!), inheritance of metadata when passing Xarrays, and the new contributable npe2 plugin settings! Read the full release notes, with highlights, here: napari.org/dev/release/...

napari.org

napari 0.9.0

⚠️ Note: these release notes are still in draft while 0.9.0rc1 is in prerelease testing. ⚠️ Thu, Aug 20, 2026 We’re happy to announce the release of napari 0.9.0! napari is a fast, interactive,…

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napari @napari.org · 20/08/2026

Sizzling Summer Series 4 - global 🌍️ napari 0.9.0 is about ready to fly out the door! ✈️ We would be grateful if you tried out the pre-release: Install into an environment with `pip install "napari[all]>=0.9.0rc1"` or try with uv in a temp environment with `uvx "napari[all]>=0.9.0rc1"`.

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Johannes Soltwedel @jo-soltwedel.bsky.social · 17/08/2026

One cool feature in the latest #ome-zarr spec are "projectAxis" transforms 📽️: Projecting images into higher dims (i.e. 2D->3D) is absolutely transformative for some use cases! Now to do this with maaaany more slides 🔬 Dataset from rodare.hzdr.de/record/3131 cc @napari.org

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napari @napari.org · 13/08/2026

Sizzling Summer Series 3 - naPLari Hackathon, Kraków 🇵🇱 A lucky crew of 13 got to spend 6 jam-packed sunny days inside pumping out a fantastical assortment of napari features 🖥️ It was a ☕️ caffeine-, string 🧀 cheese- and 🥟 pierogi-fuelled extravaganza 🎊

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napari @napari.org · 12/08/2026

Sizzling Summer Series 2: Minneapolis -> Kraków ✈️ We talked, tutorialed and sprinted at EuroPython! The sprints WENT OFF -- 22 merged PRs don't lie 🤯 Then rinse repeat for EuroSciPy - our first conference as platinum sponsors! 💐THANK YOU💐 to those who joined us in Kraków!

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napari @napari.org · 12/08/2026

July was a whirlwind 🌪️ Join us for a Sizzling Summer Series of posts highlighting the community's amazing work💪 First, @timmonko.bsky.social, @aganders3.bsky.social and @willingc.bsky.social took on Minneapolis for SciPy 2026 with a tutorial, talk and plenary update - bit.ly/napari-scipy26

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napari @napari.org · 31/07/2026

And it's a wrap! The hackathon was a fantastic success! 🥳 You can look forward to a longer post about all we did, and one of our biggest releases yet in 0.9.0! Huge thanks to all the participants 🤩, and we hope to see you at the next one!

Hackathon participants discussing a new feature demo.

Jules Vanaret shows off slicing of volumes with non-orthogonal transforms.

The naPLari hackathon crowd: Wouter-Michiel Vierdag, Grzegorz Bokota, Tim Monko, Giannis Liaskas, Draga Doncila Pop, Lorenzo Gaifas, Aroj Hada, Brian Northan, Jules Vanaret, Zuzana Čočková, Curtis Rueden, Juan Nunez-Iglesias, and Margot Chazotte.

Celebratory drink after the last full day of the hackathon. 🍻

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Johannes Soltwedel @jo-soltwedel.bsky.social · 23/07/2026

Not going to be in Cracow for the big event so had to make do with a small impromptu @napari.org x @openmicroscopy.org #omezarr Hackathon in Bern 🔬🇨🇭 @m-albert.bsky.social @guiwitz.bsky.social

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napari @napari.org · 17/07/2026

That sounds amazing @sdiebolt.bsky.social! I wonder if you would be willing to contribute this as a scientific use case for our documentation? If so please fill in the survey we shared earlier this year: bsky.app/profile/napa... Thank you!

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Samuel Le Meur-Diebolt @sdiebolt.bsky.social · 17/07/2026

napari is such an incredible piece of scientific software! 🚀 And it's not just for visualizing static data. I've been using it for the past 6 months to drive a @verasonicsinc.bsky.social ultrasound system for #fUSI, and get a nice GUI for sequence control and live visualization! 🤩

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SciPy Conference 2026 @scipyconf.bsky.social · 16/07/2026

📣 One of the best parts of #SciPy2026 is seeing the Scientific Python ecosystem evolve in real time. Today's Tools Plenary featured updates from the teams behind Zarr, Xarray, Tiled, Pangeo, scikit-image, Matplotlib, and napari, showcasing new features & future directions 🫶

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napari @napari.org · 16/07/2026

Also! Do you love napari and want to show that off *and* support the project? Thanks to our fiscal sponsor @numfocus.bsky.social, we now have a swag shop! numfocus.myspreadshop.com/napari Help the project and look good doing it! 😎👍 20% off for next 2 days (add the discount at checkout!).

numfocus.myspreadshop.com

napari | NumFOCUS Official Swag Shop

napari pocket logo light design? ⭐ napari hat and mug design ❗ napari (pocket logo)

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napari @napari.org · 13/07/2026

If you've never tried a pre-release, you can install it with pip install "napari[all]>=0.8.0rc1"

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napari @napari.org · 12/07/2026

That's the highlights, but there's many more enhancements, performance improvements, and bug fixes. See the full release notes: napari.org/dev/release/... And, as always, we'd love to hear from you. You can get in touch a myriad ways; see our community page for more: napari.org/stable/commu...

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napari @napari.org · 12/07/2026

Speaking of annotation: if you've switched back and forth between annotating in 2D and checking your work in 3D, you know it can be disorienting! You can now sync the 2D and 3D cameras so that panning, zooming, and scrubbing around in 2D affects 3D view, and vice versa. Let us know if it helps you!

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napari @napari.org · 12/07/2026

Annotating blobs just got easier with auto-fill of labels when right-clicking! Right click, draw your shape, and the whole shape gets auto-filled. This should give much faster annotations for many workflows!

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napari @napari.org · 12/07/2026

*Finally*, napari gets a built-in histogram! It's still a work in progress but already *very* cool if we do say so ourselves, with live update based on the canvas and progressive, background update when computing on large full data.

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napari @napari.org · 12/07/2026

Struggling for something to do in a TWO DAY gap without ⚽? How about trying our pre-release of napari 0.8.0? napari.org/dev/release/... Of note, this release drops Py3.10 support and deprecates PyQt5 in favor of PyQt6. It also adds some neat new features and improvements! See below: 👇

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Johannes Soltwedel @jo-soltwedel.bsky.social · 03/07/2026

Still, what's new? My personal favorite: The scene 🎥 Thanks to a now standardized set of transformations, you can write out the spatial relationships between (multi-modal) images, which is super neat in image registration... (Dataset: rodare.hzdr.de/record/3131)

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Joel Lüthi @joelluethi.bsky.social · 30/06/2026

Working with OME-Zarrs in @napari.org ? Check out the newest release of napari-ome-zarr-navigator to make your life easier & allow more interactive ways to write back to OME-Zarrs. Follow the thread for more (1/5 🧵)

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napari @napari.org · 26/06/2026

Hack with over a dozen awesome folks in Poland! Just a month away! 🥳

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Johannes Soltwedel @jo-soltwedel.bsky.social · 25/06/2026

Just the occasional this-thing-is-really-easy-in-ome-zarr-0.6 kind of post: Stitching in napari @napari.org with napari-stitcher (@m-albert.bsky.social) and napari-ome-zarr (@will-j-moore.bsky.social) (WIP) : (Sample data from the awesome big-stitcher tool github.com/JaneliaSciCo...)

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napari @napari.org · 17/06/2026

napari 0.7.1 is now available!! 🚀 🎉 Read the full release notes here: napari.org/stable/relea... Highlights: the scale bar inherits units from layers, colorbars for points layers, locking layers, and a signed Windows bundle! We thank especially our 9 new brilliant contributors 🤩

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SciPy Conference 2026 @scipyconf.bsky.social · 03/06/2026

🔬 Tutorial Spotlight: Build custom image analysis tools without starting from scratch. Tim shows you napari's power for microscopy, satellite data, and everything between 🛰️ Extend, visualize, annotate like a pro! #SciPy2026 🔗 scipy2026.scipy.org

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napari @napari.org · 12/06/2026

Join our hackathon in Kraków! It's going to be an absolutely great time! At least 8 awesome folks will be there! Fill out the typeform below so we can be in touch. 😍

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Niko Sirmpilatze @nikosirmpilatze.com · 23/04/2026

Drawing regions of interest has been among our most-requested features, and a long time in the making. Building it on top of @napari.org was fun. Drawing and editing shapes is such a joy!

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