Tim Monko
@timmonko.bsky.social
napari community manager. postdoc at U Minnesota. developmental neuroscientist, birder, and the proudest papa.
Both the deadline and school are coming up, but I still want to boost this among the life sciences crowd! I had the pleasure of teaching one of these schools in Alaska this summer, and it was an AWESOME experience. It's a very inviting space to learn things that we aren't normally taught!
Apply for the next #URSSI winter school on research software engineering, 15-17 Dec in Portland, OR: urssi.us/blog/2025/11...
For: grad students, postdocs, & other early career researchers (or beyond!) looking to increase your software dev. skills.
Applications close 21 Nov, so apply soon!
For: grad students, postdocs, & other early career researchers (or beyond!) looking to increase your software dev. skills.
Applications close 21 Nov, so apply soon!
URSSI Blog
urssi.us
November 18, 2025 at 9:52 PM
Both the deadline and school are coming up, but I still want to boost this among the life sciences crowd! I had the pleasure of teaching one of these schools in Alaska this summer, and it was an AWESOME experience. It's a very inviting space to learn things that we aren't normally taught!
Reposted by Tim Monko
Remember that survey about how we can sustain napari development? We extended the deadline until the 16th, AoE! Blog post: napari.org/island-dispa...
Survey: napari.typeform.com/sustainability
If you use napari at all we would be super grateful if you filled it in! 🙏
Survey: napari.typeform.com/sustainability
If you use napari at all we would be super grateful if you filled it in! 🙏
You might have noticed lots of activity in the napari project recently! 🚀 We're grateful for a grant from CZI that's keeping us going, but grants don't last forever: we're trying to figure out sustainable long term funding. Read our blog post to find out how you can help:
napari.org/island-dispa...
napari.org/island-dispa...
November 10, 2025 at 1:23 PM
Remember that survey about how we can sustain napari development? We extended the deadline until the 16th, AoE! Blog post: napari.org/island-dispa...
Survey: napari.typeform.com/sustainability
If you use napari at all we would be super grateful if you filled it in! 🙏
Survey: napari.typeform.com/sustainability
If you use napari at all we would be super grateful if you filled it in! 🙏
Reposted by Tim Monko
I truly appreciate the organizers, core contributors, and all attendees for this wonderful opportunity! I enjoyed learning and working on napari in a welcoming environment.
Those interested in talking about and contributing to napari, let’s join the regular community meeting together!
Those interested in talking about and contributing to napari, let’s join the regular community meeting together!
October 31, 2025 at 3:16 AM
I truly appreciate the organizers, core contributors, and all attendees for this wonderful opportunity! I enjoyed learning and working on napari in a welcoming environment.
Those interested in talking about and contributing to napari, let’s join the regular community meeting together!
Those interested in talking about and contributing to napari, let’s join the regular community meeting together!
Reposted by Tim Monko
It was a fantastic opportunity to finally meet the people behind this software that I have been using for years and is so important for my work! A big thank you to all core developers who were so welcoming, and patiently guided participants in their attempts to contribute back to napari!
Longer wrap-up to come, but in the meantime: we had a fantastic and productive time at the napari hackathon at @globias.bsky.social 2025 conference! Thanks to all the participants and to the GloBIAS team for hosting us!
October 30, 2025 at 4:14 PM
It was a fantastic opportunity to finally meet the people behind this software that I have been using for years and is so important for my work! A big thank you to all core developers who were so welcoming, and patiently guided participants in their attempts to contribute back to napari!
Reposted by Tim Monko
Happy Halloween from the napari team!
October 31, 2025 at 2:20 PM
Happy Halloween from the napari team!
Reposted by Tim Monko
Thrilled to share the first story from my postdoc! 🎉 A wonderful experiment + simulations collaboration. In the Drosophila wing, we find that 3D cell shapes affect signalling range and fine-tune developmental patterning www.biorxiv.org/content/10.1... Thread below ⬇️
August 11, 2025 at 1:18 PM
Thrilled to share the first story from my postdoc! 🎉 A wonderful experiment + simulations collaboration. In the Drosophila wing, we find that 3D cell shapes affect signalling range and fine-tune developmental patterning www.biorxiv.org/content/10.1... Thread below ⬇️
Reposted by Tim Monko
Longer wrap-up to come, but in the meantime: we had a fantastic and productive time at the napari hackathon at @globias.bsky.social 2025 conference! Thanks to all the participants and to the GloBIAS team for hosting us!
October 30, 2025 at 6:53 AM
Longer wrap-up to come, but in the meantime: we had a fantastic and productive time at the napari hackathon at @globias.bsky.social 2025 conference! Thanks to all the participants and to the GloBIAS team for hosting us!
Reposted by Tim Monko
Episode 17 - perhaps my favorite yet. How do you write a forum.image.sc post that will get you the answers you need without revealing information you don't want to tell? @erinweisbart.bsky.social and I go through what the experts need to know to help you. Post your sci q's today on forum.image.sc !
October 27, 2025 at 6:20 PM
Episode 17 - perhaps my favorite yet. How do you write a forum.image.sc post that will get you the answers you need without revealing information you don't want to tell? @erinweisbart.bsky.social and I go through what the experts need to know to help you. Post your sci q's today on forum.image.sc !
Reposted by Tim Monko
Do you use napari and love @xarray.bsky.social? Or use Xarray but cry when napari ignores the axis names? Read how we will improve this in the future! 🤝
napari.org/island-dispa...
Co-authored by @ianhi.bsky.social and @timmonko.bsky.social, powered by the @scipyconf.bsky.social sprints!
napari.org/island-dispa...
Co-authored by @ianhi.bsky.social and @timmonko.bsky.social, powered by the @scipyconf.bsky.social sprints!
Xarray ❤️ napari — napari blog documentation
napari.org
October 24, 2025 at 3:34 PM
Do you use napari and love @xarray.bsky.social? Or use Xarray but cry when napari ignores the axis names? Read how we will improve this in the future! 🤝
napari.org/island-dispa...
Co-authored by @ianhi.bsky.social and @timmonko.bsky.social, powered by the @scipyconf.bsky.social sprints!
napari.org/island-dispa...
Co-authored by @ianhi.bsky.social and @timmonko.bsky.social, powered by the @scipyconf.bsky.social sprints!
Reposted by Tim Monko
If you ever used napari in your research, take a moment to read this.
Napari, like many other resources in the bioimaging world, is freely available despite the fact that it costs many people much time and efforts to develop and maintain it.
Now you get a chance to give back, don't miss it :)
Napari, like many other resources in the bioimaging world, is freely available despite the fact that it costs many people much time and efforts to develop and maintain it.
Now you get a chance to give back, don't miss it :)
You might have noticed lots of activity in the napari project recently! 🚀 We're grateful for a grant from CZI that's keeping us going, but grants don't last forever: we're trying to figure out sustainable long term funding. Read our blog post to find out how you can help:
napari.org/island-dispa...
napari.org/island-dispa...
October 22, 2025 at 11:14 AM
If you ever used napari in your research, take a moment to read this.
Napari, like many other resources in the bioimaging world, is freely available despite the fact that it costs many people much time and efforts to develop and maintain it.
Now you get a chance to give back, don't miss it :)
Napari, like many other resources in the bioimaging world, is freely available despite the fact that it costs many people much time and efforts to develop and maintain it.
Now you get a chance to give back, don't miss it :)
Filling out the attached survey and reading this blog will really help bring you up to speed with our progress as a team. Most importantly, we want to guide this project in the direction that sustainably supports the community -- and that's why we'd like your help!
You might have noticed lots of activity in the napari project recently! 🚀 We're grateful for a grant from CZI that's keeping us going, but grants don't last forever: we're trying to figure out sustainable long term funding. Read our blog post to find out how you can help:
napari.org/island-dispa...
napari.org/island-dispa...
October 21, 2025 at 4:40 PM
Filling out the attached survey and reading this blog will really help bring you up to speed with our progress as a team. Most importantly, we want to guide this project in the direction that sustainably supports the community -- and that's why we'd like your help!
Reposted by Tim Monko
napari 0.6.6 is out! 🚀
This is a bugfix release following up 0.6.5: if something in your napari workflow unexplicably broke, you might want to update ;) Also, with the new bundle you can now "open files with > napari"! Check out the full release notes on the website: napari.org/stable/relea...
This is a bugfix release following up 0.6.5: if something in your napari workflow unexplicably broke, you might want to update ;) Also, with the new bundle you can now "open files with > napari"! Check out the full release notes on the website: napari.org/stable/relea...
napari: a fast, interactive viewer for multi-dimensional images in Python
view and explore 2D, 3D, and higher-dimensional arrays on a canvas;, overlay derived data such as points, polygons, segmentations, and more;, annotate and edit derived datasets, using standard data st...
napari.org
October 16, 2025 at 12:21 PM
napari 0.6.6 is out! 🚀
This is a bugfix release following up 0.6.5: if something in your napari workflow unexplicably broke, you might want to update ;) Also, with the new bundle you can now "open files with > napari"! Check out the full release notes on the website: napari.org/stable/relea...
This is a bugfix release following up 0.6.5: if something in your napari workflow unexplicably broke, you might want to update ;) Also, with the new bundle you can now "open files with > napari"! Check out the full release notes on the website: napari.org/stable/relea...
Reposted by Tim Monko
Big news! Our week-long #bioimageanalysis bootcamp is BACK! Learn how to think about bioimage analysis like the pros do, learn what corrections you should (and shouldn't!) apply to your images, learn open source tools, and more. Apply NOW at broad.io/BAB3 for our January 2026 course!
October 14, 2025 at 9:31 PM
Big news! Our week-long #bioimageanalysis bootcamp is BACK! Learn how to think about bioimage analysis like the pros do, learn what corrections you should (and shouldn't!) apply to your images, learn open source tools, and more. Apply NOW at broad.io/BAB3 for our January 2026 course!
This was an absolutely fabulous presentation by @jytinevez.bsky.social, and I highly encourage folks to watch! Grateful that these seminars get uploaded!
New video available in the #GloBIAS YouTube channel - we have uploaded the presentation by Jean-Yves Tinevz from September! tinyurl.com/5yc9p42k
October 10, 2025 at 8:40 PM
This was an absolutely fabulous presentation by @jytinevez.bsky.social, and I highly encourage folks to watch! Grateful that these seminars get uploaded!
Reposted by Tim Monko
Job alert!
We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks?
See also on the forum:
forum.image.sc/t/research-e...
We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks?
See also on the forum:
forum.image.sc/t/research-e...
Research engineer in Bioimage Analysis for the researchers of the inIdEx FORMULA
Hi all We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks? The position is in the Instit...
forum.image.sc
October 7, 2025 at 12:39 PM
Job alert!
We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks?
See also on the forum:
forum.image.sc/t/research-e...
We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks?
See also on the forum:
forum.image.sc/t/research-e...
Reposted by Tim Monko
Join the new plugin sustainability initiative!
Everyone is invited to fill out this interest form: forms.gle/iwX6P4tuooHK...
Follow along with initial discussion on Zulip: napari.zulipchat.com#narrow/chann...
The first zoom meeting will be this coming week: napari.org/stable/commu...
Everyone is invited to fill out this interest form: forms.gle/iwX6P4tuooHK...
Follow along with initial discussion on Zulip: napari.zulipchat.com#narrow/chann...
The first zoom meeting will be this coming week: napari.org/stable/commu...
Meeting schedule
We hold regular meetings, the timings of which are available on our public calendar. If you are using napari or interested in how napari could be used in your work, please join one of our regular comm...
napari.org
October 6, 2025 at 3:57 AM
Join the new plugin sustainability initiative!
Everyone is invited to fill out this interest form: forms.gle/iwX6P4tuooHK...
Follow along with initial discussion on Zulip: napari.zulipchat.com#narrow/chann...
The first zoom meeting will be this coming week: napari.org/stable/commu...
Everyone is invited to fill out this interest form: forms.gle/iwX6P4tuooHK...
Follow along with initial discussion on Zulip: napari.zulipchat.com#narrow/chann...
The first zoom meeting will be this coming week: napari.org/stable/commu...
Reposted by Tim Monko
Halfway to I2K is BACK, friends of all kinds! Last year, 650 people attended 30+ TOTALLY FREE image analysis workshops of all kinds, across many timezones.
If you make image analysis software and want to teach it, workshop submissions are open now! We'd love to have your tool highlighted.
If you make image analysis software and want to teach it, workshop submissions are open now! We'd love to have your tool highlighted.
#HappyFluorescenceFriday!
#microscopycommunity- want to learn open source image analysis or share your knowledge to help others? We’ve got a FREE virtual workshop Nov 17-19! Now accepting workshop session applications!
Learn more & sign up: buff.ly/esGIotD
#microscopycommunity- want to learn open source image analysis or share your knowledge to help others? We’ve got a FREE virtual workshop Nov 17-19! Now accepting workshop session applications!
Learn more & sign up: buff.ly/esGIotD
September 23, 2025 at 3:48 PM
Halfway to I2K is BACK, friends of all kinds! Last year, 650 people attended 30+ TOTALLY FREE image analysis workshops of all kinds, across many timezones.
If you make image analysis software and want to teach it, workshop submissions are open now! We'd love to have your tool highlighted.
If you make image analysis software and want to teach it, workshop submissions are open now! We'd love to have your tool highlighted.
Reposted by Tim Monko
napari 0.6.5 is out! 🚀
Rapid-fire highlights are: colorbar overlay, custom startup script, and better and prettier documentation! Check out the full release notes here: napari.org/dev/release/...
Rapid-fire highlights are: colorbar overlay, custom startup script, and better and prettier documentation! Check out the full release notes here: napari.org/dev/release/...
October 2, 2025 at 11:44 AM
napari 0.6.5 is out! 🚀
Rapid-fire highlights are: colorbar overlay, custom startup script, and better and prettier documentation! Check out the full release notes here: napari.org/dev/release/...
Rapid-fire highlights are: colorbar overlay, custom startup script, and better and prettier documentation! Check out the full release notes here: napari.org/dev/release/...
Reposted by Tim Monko
Check out the cool new “release highlights history” page @timmonko.bsky.social cooked up for us! 😍
napari.org/stable/relea...
Best of all: it’s automatically generated from release notes so it’ll always stay up to date.
napari.org/stable/relea...
Best of all: it’s automatically generated from release notes so it’ll always stay up to date.
Release Notes
Each section shows the highlights from recent releases. Click on the version links to view the complete release notes. Last updated: September 17, 2025 Recent Releases (Last 3 Months): Latest features...
napari.org
September 20, 2025 at 1:26 PM
Check out the cool new “release highlights history” page @timmonko.bsky.social cooked up for us! 😍
napari.org/stable/relea...
Best of all: it’s automatically generated from release notes so it’ll always stay up to date.
napari.org/stable/relea...
Best of all: it’s automatically generated from release notes so it’ll always stay up to date.
Reposted by Tim Monko
@napari.org @jni.codes is a finalist in the @ardc.edu.au Eureka Prize for Excellence in Research Software.
Learn more: youtu.be/0g_MkTa_NwQ
#EurekaPrizes
Learn more: youtu.be/0g_MkTa_NwQ
#EurekaPrizes
July 30, 2025 at 10:55 PM
@napari.org @jni.codes is a finalist in the @ardc.edu.au Eureka Prize for Excellence in Research Software.
Learn more: youtu.be/0g_MkTa_NwQ
#EurekaPrizes
Learn more: youtu.be/0g_MkTa_NwQ
#EurekaPrizes
Reposted by Tim Monko
It's hard to express how much gratitude I have to everyone involved in the journey, both mine and @napari.org's, that has led to this point. #EurekaPrizes A small attempt below: 👇
@napari.org @jni.codes is a finalist in the @ardc.edu.au Eureka Prize for Excellence in Research Software.
Learn more: youtu.be/0g_MkTa_NwQ
#EurekaPrizes
Learn more: youtu.be/0g_MkTa_NwQ
#EurekaPrizes
August 1, 2025 at 7:29 AM
It's hard to express how much gratitude I have to everyone involved in the journey, both mine and @napari.org's, that has led to this point. #EurekaPrizes A small attempt below: 👇
Reposted by Tim Monko
🥰 Self-supervised, label-free 3D cell imaging is here
Congrats to Cyril on this very cool first, first author publication 🏆! This started when he was a bachelor's student (and he's now completing his masters!).
And many thanks to my other awesome co-authors🙏
elifesciences.org/articles/99848
Congrats to Cyril on this very cool first, first author publication 🏆! This started when he was a bachelor's student (and he's now completing his masters!).
And many thanks to my other awesome co-authors🙏
elifesciences.org/articles/99848
Self-supervised, label-free 3D cell imaging is here
EPFL researchers introduce CellSeg3D, a self-supervised tool for 3D cell segmentation in fluorescence microscopy, eliminating the need for manual labeling and enhancing accessibility for various biolo...
actu.epfl.ch
June 24, 2025 at 5:53 PM
🥰 Self-supervised, label-free 3D cell imaging is here
Congrats to Cyril on this very cool first, first author publication 🏆! This started when he was a bachelor's student (and he's now completing his masters!).
And many thanks to my other awesome co-authors🙏
elifesciences.org/articles/99848
Congrats to Cyril on this very cool first, first author publication 🏆! This started when he was a bachelor's student (and he's now completing his masters!).
And many thanks to my other awesome co-authors🙏
elifesciences.org/articles/99848
Reposted by Tim Monko
Indeed, the participants formed groups and implemented @napari.org plugins from scratch for tasks like pixel classification or cell tracking.
At the end, the groups did a live demo of their plugin 💻
I was super impressed! 🥳
#NEUBIASPasteur2025
📚 Course materials: github.com/Image-Analys...
At the end, the groups did a live demo of their plugin 💻
I was super impressed! 🥳
#NEUBIASPasteur2025
📚 Course materials: github.com/Image-Analys...
May 13, 2025 at 10:33 AM
Indeed, the participants formed groups and implemented @napari.org plugins from scratch for tasks like pixel classification or cell tracking.
At the end, the groups did a live demo of their plugin 💻
I was super impressed! 🥳
#NEUBIASPasteur2025
📚 Course materials: github.com/Image-Analys...
At the end, the groups did a live demo of their plugin 💻
I was super impressed! 🥳
#NEUBIASPasteur2025
📚 Course materials: github.com/Image-Analys...
So excited and proud of everyone! 🎉 With this release I worked very hard to contribute to napari and learned so much along the way. I guess they want to keep me around, as I'm a core dev now! 🥳 Grateful for the entire image analysis community. 🥰
And it's finally here! napari 0.6.0 is out on PyPI and conda-forge! 🥳 We've had a few threads about this release already but let's recap with some highlights: 🧵
a woman in a hat is crying and says " i 've traveled a good many miles to get here "
Alt: Charlotte from the Sanditon TV series, emotionally exclaiming, "I've traveled a good many miles to get here!"
media.tenor.com
May 1, 2025 at 2:24 PM
So excited and proud of everyone! 🎉 With this release I worked very hard to contribute to napari and learned so much along the way. I guess they want to keep me around, as I'm a core dev now! 🥳 Grateful for the entire image analysis community. 🥰
Reposted by Tim Monko
#HappyFluorescenceFriday!
#microscopycommunity Join @bioimagingna.bsky.social Early Career WG for our Career Speaker Series on The BioImaging ToolBox: “Pre-nalysis”, Imaging, Analysis and Processing” next Thursday , May 1
Learn More & Register here buff.ly/BHGomlc
#microscopycommunity Join @bioimagingna.bsky.social Early Career WG for our Career Speaker Series on The BioImaging ToolBox: “Pre-nalysis”, Imaging, Analysis and Processing” next Thursday , May 1
Learn More & Register here buff.ly/BHGomlc
April 25, 2025 at 3:49 PM
#HappyFluorescenceFriday!
#microscopycommunity Join @bioimagingna.bsky.social Early Career WG for our Career Speaker Series on The BioImaging ToolBox: “Pre-nalysis”, Imaging, Analysis and Processing” next Thursday , May 1
Learn More & Register here buff.ly/BHGomlc
#microscopycommunity Join @bioimagingna.bsky.social Early Career WG for our Career Speaker Series on The BioImaging ToolBox: “Pre-nalysis”, Imaging, Analysis and Processing” next Thursday , May 1
Learn More & Register here buff.ly/BHGomlc