Laurent Guerard
@lguerard.bsky.social
Image Analysis specialist at the IMCF, Biozentrum @Basel
Day 2 of #Zidas2025 is happening!
After a lecture from @ahklemm.bsky.social, it's now time for hands on with @ilastik-team.bsky.social by @benediktbest.bsky.social from Anna Kreshuk's lab and some tracking in the afternoon with #Trackmate from @jytinevez.bsky.social !
After a lecture from @ahklemm.bsky.social, it's now time for hands on with @ilastik-team.bsky.social by @benediktbest.bsky.social from Anna Kreshuk's lab and some tracking in the afternoon with #Trackmate from @jytinevez.bsky.social !
July 8, 2025 at 9:22 AM
Day 2 of #Zidas2025 is happening!
After a lecture from @ahklemm.bsky.social, it's now time for hands on with @ilastik-team.bsky.social by @benediktbest.bsky.social from Anna Kreshuk's lab and some tracking in the afternoon with #Trackmate from @jytinevez.bsky.social !
After a lecture from @ahklemm.bsky.social, it's now time for hands on with @ilastik-team.bsky.social by @benediktbest.bsky.social from Anna Kreshuk's lab and some tracking in the afternoon with #Trackmate from @jytinevez.bsky.social !
And we're ON!
#Zidas2025 has officially started at the @biozentrum.unibas.ch, and the first day is introduction to image formation by Arne Seitz, Fiji by Joana Delgado Martins and Fiji scripting by me !
#Zidas2025 has officially started at the @biozentrum.unibas.ch, and the first day is introduction to image formation by Arne Seitz, Fiji by Joana Delgado Martins and Fiji scripting by me !
July 7, 2025 at 10:05 AM
And we're ON!
#Zidas2025 has officially started at the @biozentrum.unibas.ch, and the first day is introduction to image formation by Arne Seitz, Fiji by Joana Delgado Martins and Fiji scripting by me !
#Zidas2025 has officially started at the @biozentrum.unibas.ch, and the first day is introduction to image formation by Arne Seitz, Fiji by Joana Delgado Martins and Fiji scripting by me !
I couldn't find a napari plug-in to open all file formats using Bioio. So I made one : pypi.org/project/napa...
Feel free to use it and suggest improvements 🎉
Feel free to use it and suggest improvements 🎉
Client Challenge
pypi.org
July 4, 2025 at 1:15 PM
I couldn't find a napari plug-in to open all file formats using Bioio. So I made one : pypi.org/project/napa...
Feel free to use it and suggest improvements 🎉
Feel free to use it and suggest improvements 🎉
Reposted by Laurent Guerard
This summer, we are running a one-week intensive workshop on Python-based BioImage Analysis.
Are there better ways to spend 6 days in mid-July in Boston?Probably.
Would you learn as much as you will here? Probably not.
Apply here:
iac.hms.harvard.edu/bobiac/2025
Are there better ways to spend 6 days in mid-July in Boston?Probably.
Would you learn as much as you will here? Probably not.
Apply here:
iac.hms.harvard.edu/bobiac/2025
March 24, 2025 at 10:03 PM
This summer, we are running a one-week intensive workshop on Python-based BioImage Analysis.
Are there better ways to spend 6 days in mid-July in Boston?Probably.
Would you learn as much as you will here? Probably not.
Apply here:
iac.hms.harvard.edu/bobiac/2025
Are there better ways to spend 6 days in mid-July in Boston?Probably.
Would you learn as much as you will here? Probably not.
Apply here:
iac.hms.harvard.edu/bobiac/2025
🎉🎉
We just released and uploaded a new version of *Mastodon*, the large-scale tracking and track-editing framework for large, multi-view images.
Mastodon is available via Fiji, via a dedicated update site.
mastodon.readthedocs.io/en/latest/do...
Below is a thread that survey some of the novelties ⏬️
Mastodon is available via Fiji, via a dedicated update site.
mastodon.readthedocs.io/en/latest/do...
Below is a thread that survey some of the novelties ⏬️
January 30, 2025 at 6:17 PM
🎉🎉
Applications are now open!
2025 is now well underway and we are happy to announce that ZIDAS is coming to Basel this year !
2025.zidas.org
2025.zidas.org
ZIDAS 2025
This one-week school provides a hands-on introduction to image processing and analysis, with an emphasis on biologically relevant examples.
2025.zidas.org
January 30, 2025 at 2:05 PM
Applications are now open!
🤩
Finally had a bit of time to play with multi-GPU deconvolution. Using @truenorth-ia.bsky.social and @haesleinhuepf.bsky.social previous work.
Here it is in action in #BigDataViewer using async and lazy processing. Look at the two poor laptop GPUs going as fast as they can:
Here it is in action in #BigDataViewer using async and lazy processing. Look at the two poor laptop GPUs going as fast as they can:
January 14, 2025 at 9:16 PM
🤩
Reposted by Laurent Guerard
Finally had a bit of time to play with multi-GPU deconvolution. Using @truenorth-ia.bsky.social and @haesleinhuepf.bsky.social previous work.
Here it is in action in #BigDataViewer using async and lazy processing. Look at the two poor laptop GPUs going as fast as they can:
Here it is in action in #BigDataViewer using async and lazy processing. Look at the two poor laptop GPUs going as fast as they can:
January 11, 2025 at 1:41 PM
Finally had a bit of time to play with multi-GPU deconvolution. Using @truenorth-ia.bsky.social and @haesleinhuepf.bsky.social previous work.
Here it is in action in #BigDataViewer using async and lazy processing. Look at the two poor laptop GPUs going as fast as they can:
Here it is in action in #BigDataViewer using async and lazy processing. Look at the two poor laptop GPUs going as fast as they can:
2025 is now well underway and we are happy to announce that ZIDAS is coming to Basel this year !
2025.zidas.org
2025.zidas.org
ZIDAS 2025
This one-week school provides a hands-on introduction to image processing and analysis, with an emphasis on biologically relevant examples.
2025.zidas.org
January 14, 2025 at 1:36 PM
2025 is now well underway and we are happy to announce that ZIDAS is coming to Basel this year !
2025.zidas.org
2025.zidas.org
Reposted by Laurent Guerard
Entry-level position (80 - 100%) for bioimage analysis specialist at the Imaging Core Facility (IMCF) of the Biozentrum, University of Basel
www.biozentrum.unibas.ch/open-positio...
@unibas.ch #Biozentrum #Basel #research #science #joboffer #scientific
www.biozentrum.unibas.ch/open-positio...
@unibas.ch #Biozentrum #Basel #research #science #joboffer #scientific
December 13, 2024 at 10:01 AM
Entry-level position (80 - 100%) for bioimage analysis specialist at the Imaging Core Facility (IMCF) of the Biozentrum, University of Basel
www.biozentrum.unibas.ch/open-positio...
@unibas.ch #Biozentrum #Basel #research #science #joboffer #scientific
www.biozentrum.unibas.ch/open-positio...
@unibas.ch #Biozentrum #Basel #research #science #joboffer #scientific
Come join us if you do image analysis!
🌟We are looking for a new member of our image analysis team at the Imaging Core Facility of the Biozentrum in Basel 🌟
Are you passionate about science and technology? Are you interested in bioimaging? Please check the job ad below
#JobOpportunity #ImageAnalysis #DeepLearning
@biozentrum.bsky.social
Are you passionate about science and technology? Are you interested in bioimaging? Please check the job ad below
#JobOpportunity #ImageAnalysis #DeepLearning
@biozentrum.bsky.social
Entry-level position (80 - 100%) for bioimage analysis specialist at the Imaging Core Facility (IMCF) of the Biozentrum, University of Basel
www.biozentrum.unibas.ch/open-positio...
@unibas.ch #Biozentrum #Basel #research #science #joboffer #scientific
www.biozentrum.unibas.ch/open-positio...
@unibas.ch #Biozentrum #Basel #research #science #joboffer #scientific
December 13, 2024 at 12:58 PM
Come join us if you do image analysis!
Reposted by Laurent Guerard
sorry about that, i asked it to make sense of my life choices
December 12, 2024 at 5:03 AM
sorry about that, i asked it to make sense of my life choices
If you're scared of IA taking over your job, we probably still have a few years ahead of us 😁
December 12, 2024 at 7:16 AM
If you're scared of IA taking over your job, we probably still have a few years ahead of us 😁
Reposted by Laurent Guerard
Core facility microscopists assemble!
I created a starter pack for Imaging Scientists that work in core facilities.
I'm sure I missed lots of people since I searched for those that have "core" or "facility" in their bios, so let me know who else should be added!
go.bsky.app/2bbgRQU
I'm sure I missed lots of people since I searched for those that have "core" or "facility" in their bios, so let me know who else should be added!
go.bsky.app/2bbgRQU
December 7, 2024 at 10:31 AM
Core facility microscopists assemble!
Reposted by Laurent Guerard
#BIAToolTip No.15
On Windows there is the ColourSimulator App which allows you to simulate on your screen with a slidable window to inspect design or images to check if those are inclusive for color deficient vision.
The #biovoxxel LUT Channels Tool provides a related functionality.
On Windows there is the ColourSimulator App which allows you to simulate on your screen with a slidable window to inspect design or images to check if those are inclusive for color deficient vision.
The #biovoxxel LUT Channels Tool provides a related functionality.
December 5, 2024 at 4:22 PM
#BIAToolTip No.15
On Windows there is the ColourSimulator App which allows you to simulate on your screen with a slidable window to inspect design or images to check if those are inclusive for color deficient vision.
The #biovoxxel LUT Channels Tool provides a related functionality.
On Windows there is the ColourSimulator App which allows you to simulate on your screen with a slidable window to inspect design or images to check if those are inclusive for color deficient vision.
The #biovoxxel LUT Channels Tool provides a related functionality.
If you have no friends, but want to play Pictionary, now, you can!
Since I saw this online, I wanted to play it myself: #VLM-Pictionary with human in the loop #opensource! 👾🕹️
Also my drawing skills are exceptional 🖌️🫠
(Inspired by Paul Calcraft and @simonwillison.net )
github.com/haesleinhuep...
Also my drawing skills are exceptional 🖌️🫠
(Inspired by Paul Calcraft and @simonwillison.net )
github.com/haesleinhuep...
November 29, 2024 at 8:50 PM
If you have no friends, but want to play Pictionary, now, you can!
Reposted by Laurent Guerard
Why #BigDataViewer loves multi-resolution (pyramidal) formats:
- Top left: Only high-res data → slow & artifacts when zoomed out.
- Top right: Only low-res data → no details when zoomed in.
- Bottom: All resolutions → seamless, responsive, beautiful. 🎥
#FijiSc
- Top left: Only high-res data → slow & artifacts when zoomed out.
- Top right: Only low-res data → no details when zoomed in.
- Bottom: All resolutions → seamless, responsive, beautiful. 🎥
#FijiSc
November 27, 2024 at 10:21 AM
Why #BigDataViewer loves multi-resolution (pyramidal) formats:
- Top left: Only high-res data → slow & artifacts when zoomed out.
- Top right: Only low-res data → no details when zoomed in.
- Bottom: All resolutions → seamless, responsive, beautiful. 🎥
#FijiSc
- Top left: Only high-res data → slow & artifacts when zoomed out.
- Top right: Only low-res data → no details when zoomed in.
- Bottom: All resolutions → seamless, responsive, beautiful. 🎥
#FijiSc
Reposted by Laurent Guerard
😱📣 BlueSky-ers: WE NEED YOUR HELP!!! 🙏
All of you who ever liked a lecture of mine...
All of you who liked one of the courses I teach in...
All of you I work(ed) with in one way or another...
All of you who see my desperation! 😜
PLEASE re-post! 🙏 careers.humantechnopole.it/o/postdoc-in...
All of you who ever liked a lecture of mine...
All of you who liked one of the courses I teach in...
All of you I work(ed) with in one way or another...
All of you who see my desperation! 😜
PLEASE re-post! 🙏 careers.humantechnopole.it/o/postdoc-in...
Postdocs in Artificial Intelligence
Human Technopole (HT) is an interdisciplinary life science research institute, created and supported by the Italian Government, with the aim of developing innovative strategies to improve human health
careers.humantechnopole.it
October 27, 2023 at 3:05 PM
😱📣 BlueSky-ers: WE NEED YOUR HELP!!! 🙏
All of you who ever liked a lecture of mine...
All of you who liked one of the courses I teach in...
All of you I work(ed) with in one way or another...
All of you who see my desperation! 😜
PLEASE re-post! 🙏 careers.humantechnopole.it/o/postdoc-in...
All of you who ever liked a lecture of mine...
All of you who liked one of the courses I teach in...
All of you I work(ed) with in one way or another...
All of you who see my desperation! 😜
PLEASE re-post! 🙏 careers.humantechnopole.it/o/postdoc-in...
Reposted by Laurent Guerard
Posts are to be called Skywriting and threads are to be called Skydives.
November 19, 2024 at 4:29 AM
Posts are to be called Skywriting and threads are to be called Skydives.
Reposted by Laurent Guerard
Since @markhamillofficial.bsky.social has joined Bluesky I think it totally appropriate to call ourselves Skywalkers instead of Twitterati
November 19, 2024 at 4:27 AM
Since @markhamillofficial.bsky.social has joined Bluesky I think it totally appropriate to call ourselves Skywalkers instead of Twitterati
Small tip : There's even a Fiji plug-in to simulate colorblindness if you're not sure about your current LUT! 😉
imagej.net/plugins/simu...
imagej.net/plugins/simu...
November 17, 2024 at 5:39 PM
Small tip : There's even a Fiji plug-in to simulate colorblindness if you're not sure about your current LUT! 😉
imagej.net/plugins/simu...
imagej.net/plugins/simu...
Reposted by Laurent Guerard
🚀Thrilled to announce #inTRACKtive: a web-based tool for exploring massive cell-tracking datasets, no software installation required! Open your browser and dive into terabytes of developmental biology data 🐭🪰🪱🪲🐠
Preprint:
biorxiv.org/content/10.1...
Repository:
github.com/royerlab/inT...
🧵1/n
Preprint:
biorxiv.org/content/10.1...
Repository:
github.com/royerlab/inT...
🧵1/n
November 13, 2024 at 7:53 PM
🚀Thrilled to announce #inTRACKtive: a web-based tool for exploring massive cell-tracking datasets, no software installation required! Open your browser and dive into terabytes of developmental biology data 🐭🪰🪱🪲🐠
Preprint:
biorxiv.org/content/10.1...
Repository:
github.com/royerlab/inT...
🧵1/n
Preprint:
biorxiv.org/content/10.1...
Repository:
github.com/royerlab/inT...
🧵1/n
Reposted by Laurent Guerard
In an effort to bring myself (and maybe others?) some joy while working through all the feels, I’m just gonna start sharing cool stuff in my camera roll from work like these bloody-belly comb jellies found only in the #deepsea & @montereyaq.bsky.social www.montereybayaquarium.org/animals/anim...
November 9, 2024 at 8:41 PM
In an effort to bring myself (and maybe others?) some joy while working through all the feels, I’m just gonna start sharing cool stuff in my camera roll from work like these bloody-belly comb jellies found only in the #deepsea & @montereyaq.bsky.social www.montereybayaquarium.org/animals/anim...
Reposted by Laurent Guerard
Fantastic resource for bio icons: NIH Bioart Source
Build figures, presentations, and illustrations with 2,000+ science and medical art visuals. This collection of high-quality, scientifically accurate vectors, #icons, and brushes is freely available within the public domain. bioart.niaid.nih.gov
Build figures, presentations, and illustrations with 2,000+ science and medical art visuals. This collection of high-quality, scientifically accurate vectors, #icons, and brushes is freely available within the public domain. bioart.niaid.nih.gov
October 29, 2024 at 7:19 AM
Fantastic resource for bio icons: NIH Bioart Source
Build figures, presentations, and illustrations with 2,000+ science and medical art visuals. This collection of high-quality, scientifically accurate vectors, #icons, and brushes is freely available within the public domain. bioart.niaid.nih.gov
Build figures, presentations, and illustrations with 2,000+ science and medical art visuals. This collection of high-quality, scientifically accurate vectors, #icons, and brushes is freely available within the public domain. bioart.niaid.nih.gov
Reposted by Laurent Guerard
Last days to apply!
Deadline is tomorrow
Deadline is tomorrow
We are hiring!
forum.image.sc/t/research-e...
We are looking for a bioimage analyst to work within the core facility, but collaborating on the projects of the users of France-Bioimaging (that is: roughly all France). imaging.
forum.image.sc/t/research-e...
We are looking for a bioimage analyst to work within the core facility, but collaborating on the projects of the users of France-Bioimaging (that is: roughly all France). imaging.
forum.image.sc
October 17, 2023 at 6:02 AM
Last days to apply!
Deadline is tomorrow
Deadline is tomorrow