Hi Fans of Feedback Microscopy,
what would you do when you have access to the pixel stream from @zeiss-microscopy.bsky.social inside @napari.org?
Btw, it works as well in Fiji&ImageJ :-)
Sidenote: Experiments started from "outside" do not update the ZEN UI. But they are executed by ZENservice.
what would you do when you have access to the pixel stream from @zeiss-microscopy.bsky.social inside @napari.org?
Btw, it works as well in Fiji&ImageJ :-)
Sidenote: Experiments started from "outside" do not update the ZEN UI. But they are executed by ZENservice.
November 7, 2025 at 7:23 PM
Hi Fans of Feedback Microscopy,
what would you do when you have access to the pixel stream from @zeiss-microscopy.bsky.social inside @napari.org?
Btw, it works as well in Fiji&ImageJ :-)
Sidenote: Experiments started from "outside" do not update the ZEN UI. But they are executed by ZENservice.
what would you do when you have access to the pixel stream from @zeiss-microscopy.bsky.social inside @napari.org?
Btw, it works as well in Fiji&ImageJ :-)
Sidenote: Experiments started from "outside" do not update the ZEN UI. But they are executed by ZENservice.
My new ImageJ / Fiji toolkit is out 🔥! The goal is to make image handling & visualization easy, with an intuitive interface! Install it on Fiji with the "Image Viewer" update site
#microscopy #ImageJ #FluorescenceFriday #microscopyMonday
imagej.net/plugins/imag...
#microscopy #ImageJ #FluorescenceFriday #microscopyMonday
imagej.net/plugins/imag...
November 4, 2025 at 10:40 PM
My new ImageJ / Fiji toolkit is out 🔥! The goal is to make image handling & visualization easy, with an intuitive interface! Install it on Fiji with the "Image Viewer" update site
#microscopy #ImageJ #FluorescenceFriday #microscopyMonday
imagej.net/plugins/imag...
#microscopy #ImageJ #FluorescenceFriday #microscopyMonday
imagej.net/plugins/imag...
Authors published a paper in Biorxiv, they used ImageJ in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #STMpublishing #OpenScience
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #STMpublishing #OpenScience
www.biorxiv.org
October 25, 2025 at 2:19 PM
Authors published a paper in Biorxiv, they used ImageJ in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #STMpublishing #OpenScience
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #STMpublishing #OpenScience
Me: Ok, I know a little R and a little Python and (blergh) a little ImageJ JavaScript. That’s it for now!
R script: Now run this in Perl!
R script: Now run this in Perl!
a woman in a suit says i have no idea what any of those words mean ..
ALT: a woman in a suit says i have no idea what any of those words mean ..
media.tenor.com
October 23, 2025 at 10:33 PM
Me: Ok, I know a little R and a little Python and (blergh) a little ImageJ JavaScript. That’s it for now!
R script: Now run this in Perl!
R script: Now run this in Perl!
Pleased to get some preliminary function from ImageJ plugin SE_MTF (written by Carles Mitja and friends at the Image Quality Laboratory, UPC, Spain) today. Edge spatial response shown for ROI 63 x 189 of slanted edge SEMTFbmp1.tiff. Next: scan a double-edge razor blade on Canon scanner and analyze.
October 20, 2025 at 10:04 PM
Pleased to get some preliminary function from ImageJ plugin SE_MTF (written by Carles Mitja and friends at the Image Quality Laboratory, UPC, Spain) today. Edge spatial response shown for ROI 63 x 189 of slanted edge SEMTFbmp1.tiff. Next: scan a double-edge razor blade on Canon scanner and analyze.
Authors published a paper in Biorxiv, they used ImageJ in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #OpenScience #STMpublishing
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #OpenScience #STMpublishing
www.biorxiv.org
October 18, 2025 at 2:04 PM
Authors published a paper in Biorxiv, they used ImageJ in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #OpenScience #STMpublishing
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #OpenScience #STMpublishing
Authors published a paper in Biorxiv, they used ImageJ in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #reproducibility #methodsmatter
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #reproducibility #methodsmatter
www.biorxiv.org
October 18, 2025 at 2:04 PM
Authors published a paper in Biorxiv, they used ImageJ in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #reproducibility #methodsmatter
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #reproducibility #methodsmatter
I’m happy to share some plugins I’ve been developping this summer: "Channels and Contrast" and LUTs Manager!
I can’t find new bugs and ideas by now so I need your help to please test them in your machines and report bugs, feedbacks and ideas! forum.image.sc/t/looking-fo...
I can’t find new bugs and ideas by now so I need your help to please test them in your machines and report bugs, feedbacks and ideas! forum.image.sc/t/looking-fo...
October 6, 2025 at 6:52 AM
The IMAG'IC team is back to offer you the "Introduction to the Use of #ImageJ" training course.
October 24, 2025: Session in French
October 29, 2025: Session in English
institutcochin.fr/formations/f...
@institutcochin.bsky.social
@upcite.bsky.social
@inserm.fr
October 24, 2025: Session in French
October 29, 2025: Session in English
institutcochin.fr/formations/f...
@institutcochin.bsky.social
@upcite.bsky.social
@inserm.fr
October 6, 2025 at 3:07 PM
The IMAG'IC team is back to offer you the "Introduction to the Use of #ImageJ" training course.
October 24, 2025: Session in French
October 29, 2025: Session in English
institutcochin.fr/formations/f...
@institutcochin.bsky.social
@upcite.bsky.social
@inserm.fr
October 24, 2025: Session in French
October 29, 2025: Session in English
institutcochin.fr/formations/f...
@institutcochin.bsky.social
@upcite.bsky.social
@inserm.fr
Be me.
Have a script that analyses images in ImageJ.
Plug it into ChatGPT and ask it to adapt so it runs for a TP0, generates masks, then applies those masks to the following TPs and does the processing.
ChatGPT: Job’s done!
Me: Everything broke. Why?
ChatGPT: Oh I did it when I simplified.
Have a script that analyses images in ImageJ.
Plug it into ChatGPT and ask it to adapt so it runs for a TP0, generates masks, then applies those masks to the following TPs and does the processing.
ChatGPT: Job’s done!
Me: Everything broke. Why?
ChatGPT: Oh I did it when I simplified.
a close up of a cartoon character covering his eyes with his hands
ALT: a close up of a cartoon character covering his eyes with his hands
media.tenor.com
October 3, 2025 at 1:28 PM
Be me.
Have a script that analyses images in ImageJ.
Plug it into ChatGPT and ask it to adapt so it runs for a TP0, generates masks, then applies those masks to the following TPs and does the processing.
ChatGPT: Job’s done!
Me: Everything broke. Why?
ChatGPT: Oh I did it when I simplified.
Have a script that analyses images in ImageJ.
Plug it into ChatGPT and ask it to adapt so it runs for a TP0, generates masks, then applies those masks to the following TPs and does the processing.
ChatGPT: Job’s done!
Me: Everything broke. Why?
ChatGPT: Oh I did it when I simplified.
Authors published a paper in Biorxiv, they used ImageJ in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #reproducibility #STMpublishing
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #reproducibility #STMpublishing
www.biorxiv.org
September 24, 2025 at 12:27 PM
Authors published a paper in Biorxiv, they used ImageJ in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #reproducibility #STMpublishing
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #reproducibility #STMpublishing
Congratulations to the winners of our image competition with the @mblscience.bsky.social Embryology course. The winner of the Editor’s choice is an image of a anole lizard eye, acquired by Arthur Boutillon @campaslab.bsky.social.
thenode.biologists.com/results-from...
#devbio 🔬🎉
thenode.biologists.com/results-from...
#devbio 🔬🎉
September 11, 2025 at 2:16 PM
Congratulations to the winners of our image competition with the @mblscience.bsky.social Embryology course. The winner of the Editor’s choice is an image of a anole lizard eye, acquired by Arthur Boutillon @campaslab.bsky.social.
thenode.biologists.com/results-from...
#devbio 🔬🎉
thenode.biologists.com/results-from...
#devbio 🔬🎉
machine learning is different. I'm talking about chatbots and image generators, not like imagej
September 10, 2025 at 4:52 AM
machine learning is different. I'm talking about chatbots and image generators, not like imagej
先日のImageJミーティングはディープラーニングで画像復元する話（デコンボルーションの深層学習バージョンである）ばっかりでした。この動きの中心はまたもやドレスデン。http://csbdeep.bioimagecomputing.com/
で、その台風の渦の中心にフロリアン。来年5月の名古屋にくるよ。
で、その台風の渦の中心にフロリアン。来年5月の名古屋にくるよ。
CSBDeep
A toolbox for Content-aware Image Restoration.
csbdeep.bioimagecomputing.com
January 28, 2025 at 4:14 PM
先日のImageJミーティングはディープラーニングで画像復元する話（デコンボルーションの深層学習バージョンである）ばっかりでした。この動きの中心はまたもやドレスデン。http://csbdeep.bioimagecomputing.com/
で、その台風の渦の中心にフロリアン。来年5月の名古屋にくるよ。
で、その台風の渦の中心にフロリアン。来年5月の名古屋にくるよ。
Lots of cool stuff in the latest ImageJ 1.53a - in particular the numeric keyboard shortcuts now working for both top row and num keypad. Update manually via the Help menu in ImageJ and @FijiSc (whose updater is now 7 updates behind at 1.52p from June 2019)
December 31, 2024 at 5:40 PM
Lots of cool stuff in the latest ImageJ 1.53a - in particular the numeric keyboard shortcuts now working for both top row and num keypad. Update manually via the Help menu in ImageJ and @FijiSc (whose updater is now 7 updates behind at 1.52p from June 2019)
ImageJ tweeps: is there a plugin or macro that would easily generate an averaged PSF from a Z-stack of bead field (I mean detecting the beads, aligning and averaging the PSF for each one)? Thanks
December 30, 2024 at 4:41 PM
ImageJ tweeps: is there a plugin or macro that would easily generate an averaged PSF from a Z-stack of bead field (I mean detecting the beads, aligning and averaging the PSF for each one)? Thanks
Great results and I will try to keep my house with higher RH in winter but how were they tracked? In methods, it says just one line "Images were processed using ImageJ." https://x.com/VirusesImmunity/status/1320430656481120256
January 28, 2025 at 7:16 PM
Great results and I will try to keep my house with higher RH in winter but how were they tracked? In methods, it says just one line "Images were processed using ImageJ." https://x.com/VirusesImmunity/status/1320430656481120256
UChicago Light Microscopy Core Facility http://digital.bsd.uchicago.edu//imagej_macros.html #ImageJ
January 28, 2025 at 6:25 PM
UChicago Light Microscopy Core Facility http://digital.bsd.uchicago.edu//imagej_macros.html #ImageJ
New #ImageJ script on my blog: quickly split a text file. Useful to isolate channels in super-res localization files http://downthemicroscope.postach.io/imagej-script-split-a-text-file-according-to-an-identifier-column-such-as-a-channel-label
December 26, 2024 at 5:02 PM
New #ImageJ script on my blog: quickly split a text file. Useful to isolate channels in super-res localization files http://downthemicroscope.postach.io/imagej-script-split-a-text-file-according-to-an-identifier-column-such-as-a-channel-label
And today's post is an #ImageJ macro for batch Z-projection with neat options: http://www.downthemicroscope.postach.io/imagej-macro-batch-z-projection
December 26, 2024 at 4:57 PM
And today's post is an #ImageJ macro for batch Z-projection with neat options: http://www.downthemicroscope.postach.io/imagej-macro-batch-z-projection
Will try ASAP! New #ImageJ plugin for neuron 2D segmentation and protein distribution analysis [J Neuro Methods]: http://www.sciencedirect.com/science/article/pii/S0165027013004330
December 26, 2024 at 4:57 PM
Will try ASAP! New #ImageJ plugin for neuron 2D segmentation and protein distribution analysis [J Neuro Methods]: http://www.sciencedirect.com/science/article/pii/S0165027013004330
Processing question. I have live-cell imaging stacks (2 channels, 2D+t) that have slow drift. What's the best #ImageJ plugin to correct it?
December 28, 2024 at 4:32 PM
Processing question. I have live-cell imaging stacks (2 channels, 2D+t) that have slow drift. What's the best #ImageJ plugin to correct it?
How can ImageJ help #neuroscientists to analyse calcification of the intracranial internal carotid artery in CT images 🤔 ? Supported by #EuroBioImaging’s Population Imaging Node, this tool was applied to a large scale population study with great results.
Learn more 🔽
https://buff.ly/3CV1HLC
Learn more 🔽
https://buff.ly/3CV1HLC
February 17, 2025 at 5:08 PM
How can ImageJ help #neuroscientists to analyse calcification of the intracranial internal carotid artery in CT images 🤔 ? Supported by #EuroBioImaging’s Population Imaging Node, this tool was applied to a large scale population study with great results.
Learn more 🔽
https://buff.ly/3CV1HLC
Learn more 🔽
https://buff.ly/3CV1HLC
For this #FluorescenceFriday I share another example of the possibilities of making art with imageJ processing. This is a 3 day long time-lapse of a growing slime mold, with 15 min growth waves color coded.
the white things are oat flakes. I'll share the original video in comments
#Sciart
the white things are oat flakes. I'll share the original video in comments
#Sciart
March 14, 2025 at 8:05 PM
For this #FluorescenceFriday I share another example of the possibilities of making art with imageJ processing. This is a 3 day long time-lapse of a growing slime mold, with 15 min growth waves color coded.
the white things are oat flakes. I'll share the original video in comments
#Sciart
the white things are oat flakes. I'll share the original video in comments
#Sciart
2️⃣ Image Analysis Automation with ImageJ Macro Scripting
Tired of doing the same clicks over & over?
This course teaches you to automate your workflows using ImageJ macros.
🛠️ Save time. Get reproducible results. No prior programming skills necessary!
#automation #ImageJ #macro
youtu.be/OaXdxMdaFUE
Tired of doing the same clicks over & over?
This course teaches you to automate your workflows using ImageJ macros.
🛠️ Save time. Get reproducible results. No prior programming skills necessary!
#automation #ImageJ #macro
youtu.be/OaXdxMdaFUE
ImageJ Macro Scripting for Automatic Image Analysis Online Course
YouTube video by Jan Brocher
youtu.be
July 21, 2025 at 7:49 PM
2️⃣ Image Analysis Automation with ImageJ Macro Scripting
Tired of doing the same clicks over & over?
This course teaches you to automate your workflows using ImageJ macros.
🛠️ Save time. Get reproducible results. No prior programming skills necessary!
#automation #ImageJ #macro
youtu.be/OaXdxMdaFUE
Tired of doing the same clicks over & over?
This course teaches you to automate your workflows using ImageJ macros.
🛠️ Save time. Get reproducible results. No prior programming skills necessary!
#automation #ImageJ #macro
youtu.be/OaXdxMdaFUE