DeepImageJ 3.0 released—a user-friendly #FijiSc plugin that enables the use of a variety of pre-trained neural networks from the #BioimageModelZoo. Works with small and also very large images thanks to #ImgLib2.

https://deepimagej.github.io/

#DeepImageJ #PyTorch #TensorFlow #ImageJ #ImageProcessing

I have to be up in 5 hours to catch a flight but instead of sleeping, I'm noodling with #ImageJ scripts to detect soil boundaries.

https://forum.image.sc/t/how-to-crop-large-number-of-plant-image-at-root-shoot-junction/82567/4?u=dnmason

#NerdSniped #ImageAnalysis #BioImageAnalysis #PlantScience #Fiji

I have to be up in 5 hours to catch a flight but instead of sleeping, I'm noodling with #ImageJ scripts to detect soil boundaries.

https://forum.image.sc/t/how-to-crop-large-number-of-plant-image-at-root-shoot-junction/82567/4?u=dnmason

#NerdSniped #ImageAnalysis #BioImageAnalysis #PlantScience #Fiji

First experience last night dealing with a user on image.sc who provided #chatgpt #code

https://forum.image.sc/t/macro-for-sequence-image-with-respective-roi/80971/5?u=dnmason

It's fascinating to see how the code _looks_ right, but is fundamentally wrong (no images opened, made up functions &c). However you can't know this without having existing experience in #ImageJ scripting.

My biggest concern though is that the promise of easy wins, makes people ignore the existing documentation.

#BioImageAnalysis #ScienceMastodon

Where does you #Fiji / #ImageJ live?

Another silly ImageJ/Fiji question: Is there any way to display the area of bleaching in Fiji? I have a movie with a circular area where the bleaching occurs, is there any way to display this bleaching circle on the image without drawing by hand? #imageanalysis #imageJ #Fiji

It's hosted here if you want a play: http://pcwww.liv.ac.uk/~cci/reveal_ia/ImageAnalysisWithFiji.html

And all the source is available for reuse and reworking here:

https://bitbucket.org/davemason/imageanalysiswithfiji/src/master/

#ImageAnalysis #Fiji #ImageJ #ScienceMastodon

Some years ago, I wrote an interactive #BioImageAnalysis with #Fiji / #ImageJ training course.

Every now and then it pops up in my timeline and it feels amazing that people are still using it and finding it helpful!

https://twitter.com/Rashi__Kumar/status/1640772152516575232

I'm trying to compare #bacteria from #microscopy images with #microbeJ (wild type versus mutant). This #ImageJ plugin seems perfect for what I want to do, but the documentation on https://microbej.com is not like the interface on my Mac👇, is there a newer manual somewhere? Or are there other programs for this?

好像迫于写论文实在要用终于学会了一些 #ImageJ 技能

Are you a #Fiji / #ImageJ user? What do you think about the way the software updates when you open it? Can you think of a better way? Share your opinion!

https://forum.image.sc/t/offer-fiji-update-when-closing-the-application/78016?u=dnmason

#BioImageAnalysis #ImageAnalysis

RT @biovoxxel
UPDATE: BioVoxxel Figure Tools 1.7.0b released
#Fiji #FAIR
"Export Time Series to SVGs" enables time point exportation with defined increment as individual SVGs for easy figure creation in #Inkscape.
Supports hyperstacks and #ImageJ overlays.
Image source: https://doi.org/10.5281/zenodo.6139958

I have this silly question about #imagesegmentation. So is there any advantage to using different software for image segmentation? I see #ImageJ, #CellProfiler, #Napari and #Python all can do this, but if the underlying algorithm is the same, then why not just stick with ImageJ?

If you use Fiji (ImageJ) I made lookup tables (LUTs) using a color blind friendly color set from Okabe & Ito (2002).

It provides a few more options for your image stacks beyond the recommended green/magenta combination.

To use, simply activate the ColorBlindLUTs update site in Fiji (and restart). For more details:

https://github.com/bruvellu/color-blind-luts

#FijiSc #ImageJ #ColorScheme #ColorBlind

Sigo jugando con el #espectro capturado ayer del #Sol. En proceso de aprendizaje usando #ImageJ y #AstroImageJ.

¿Los conoces? #Softwarelibre en función de la #astronomía.

Una visión diferente de ver al Astro Rey.

#ImageAnalysis #TrackMate #ImageJ #Fiji This may be a silly question but is there a way to calculate directionality on TrackMate? Or if not, is there a file that can be used to calculate directionality later on? I can't seem to find the right file. Thank you

Point Me At The Sky: wall art using Raspberry Pi camera images

https://quantixed.org/2023/01/17/point-me-at-the-sky-wall-art-using-raspberry-pi-camera-images/

#computing #fun #art #FIJI #ImageJ #PiCam #RaspberryPi #RPi

Hello, Image Analysts! Reminder that we have a #vacancy for an #ImageAnalyst to join a small friendly team providing #microscopy and #computing support for #CellBiology and #DevBio researchers at #Warwick Medical School, UK. This is a temporary maternity cover position. Closing date is 15th Jan i.e. Sunday!

https://focalplane.biologists.com/2022/12/15/research-fellow-in-computing-image-analysis/

#ImageJ #Python #OMERO

RT @actin_crazy@twitter.com

OK so I gave it the easiest prompt possible BUT!!!! OpenAI's Chatbot can output #ImageJ macros!

🐦🔗: https://twitter.com/actin_crazy/status/1598752611276029978

@ratamero Hashtags for discoverability: #ImageAnalysis #Biology #CompBio #Job #ComputationalBiology #Microscopy #imageJ #Science #ScienceJobs

(sorry this is a little out of field so I'm guessing a bit, but I'm all for scientists finding jobs via social media, twitter is how I ended up at UCI)