So, now the article also made it into the newsletter and is available!

Bio-Imaging with Shakespeare: pseudocoloring (LUTs) — reveal hidden imaging issues and highlight important data. ✔ Spot noise, shading & saturation ✔ Map data for spatial insight ✔ Make color accessible to all ✔ Why to use a calibration bar Full guide, tools & tutorial inside 👇 buff.ly/8x7Shiq

Everyone who does quantitative microscopy should read this! It’s amazing how many ways we can bias our imaging experiments without realizing we’re doing it.

No. 3 - To Script it, or not to Script it? ImageJ's GenericDialog or ImageJ2 Script Parameter driven dialogs. Which one's for you and fits your needs? BioVoxxel’s latest "Bio-Imaging with Shakespeare" Newsletter explores the trade-offs: buff.ly/8x7Shiq #BioImageAnalysis #ImageJ #SciJava #IJMacro

Amazing BlueSky Summer Sale Last Chance — ONLY 1 DAY LEFT For any of the #BioVoxxel online self-learning courses buff.ly/o64cW9Y Use the code "BSKY101010" at checkout to redeem your discount. Hurry, and see if any codes are left for you! Only 10 codes until August 31st 2025 available!🏃‍♂️

In the 2nd edition of Bio-Imaging with Shakespeare we meet a pesky gremlin — uneven illumination (aka shading, intensity non-uniformity). 🎭🔬 💻 It can quietly bias your segmentation and image analysis results! So, detect it early, correct it appropriately! Subscribe on LinkedIn buff.ly/cLPh8eZ

Amazing BlueSky Summer Sale Your choice: Any of the #BioVoxxel online self-learning courses buff.ly/o64cW9Y The first 10 participants that enroll in the next 10 days get 10% OFF Use the code "BSKY101010" at checkout to redeem your discount. Hurry, only 10 chances until August 31st 2025!🏃‍♂️🏃‍♀️

Embark on your journey to become an #ImageAnalysis champion today! 🏅 🏆 Sign up here: buff.ly/o64cW9Y 1. Basic Microscopic Image Analysis 2. Automate Analyses with #ImageJ #Macro #Scripting 3. Transform Pixels to Patterns with #MachineLearning #Fiji #BioVoxxel Any Questions? -> DM me Bsky

I am stunned! First edition of the "Bio-Imaging with Shakespeare" LinkedIn Newsletter (buff.ly/8x7Shiq) is out for 15h and already 130 subscribers. If you are interested in the topic FOLLOW ME on LinkedIn and Bsky and SUBSCRIBE on LinkedIn buff.ly/cLPh8eZ #bioimageanalysis #biovoxxel #fiji

To interpolate or not to interpolate ? That is the question! 1st edition of the Bio-Imaging with Shakespeare Newsletter I start a biweekly series containing takes on bio-image analysis, processing techniques, insight into tools and trade‑offs as well as best practices. Subscribe buff.ly/cLPh8eZ

In #imageanalysis like in hiking, preparation and training is key to master challenges ahead. 🥾 Hiker: Basic Microscopic Image Processing and Analysis 🏔 Climber: ImageJ Macro Scripting 🧗 Free Climber: Applied #machinelearning Choose your challenge 👉 www.biovoxxel.de/individual-w... #Fiji #ImageJ

🎉 Amazing NEWS for #ImageAnalysis & #LifeSciences folks! The ultimate #imageanalysis #hattrick is here 🧠🔬✨ www.biovoxxel.de/individual-w... Read the 🧵👇 All necessary info and links at the end ! #bioimaging #learning #science #lifescience #microscopy #fiji #imagej #machinelearning #deeplearning

In the context of our @reviewcommons.org revision process, I'm happy to announce Microscopy Nodes v2.2.0! This packs lots of new fun features, including new color management 🌈, clearer transparency handling 🫥, custom default settings 🔧 and more! Preprint at doi.org/10.1101/2025...

I regularly point collaborators at this segmentation quality assurance blog post by @marabuuuu.bsky.social , because some scientists get trapped in a segmentation-improvement-loop without ever measuring how good an algorithm actually is. focalplane.biologists.com/2023/04/13/q...

BIG NEWS - for the first time ever, we're running a Bioimage Analysis Beginnings Bootcamp. Learn #bioimageanalysis from awesome folks, and gain familiarity with some new tools as well as how to pick the right tool in the first place. Aug 4th-8th - apply here (soon!) forms.gle/d2fCXsrWHVP8...

Are you a #BioImageAnalysis pro? Challenge your skills by playing #BIAbubbles! 🎉 Find the right workflows and reproduce the result! 🔬🖥️🕹️ And if you have challenging BIA tasks, new level contributions are welcome! 😀 github.com/haesleinhuep...

If you work at a computer all day, nothing beats the tactile joy of offline hobbies—like baking something beautiful and delicious. But if you're deep into image analysis, there's a special kind of reward in automating with ImageJ macros. Different work, different dopamine. Interested in the latter?

Want to hear more about the history of @cellprofiler.bsky.social , and about what comes next? Come listen to @gnodar.bsky.social and I talk about it tomorrow at the @globias.bsky.social seminar series - 5pm CEST/11am CDT/ 8 am PDT. Register NOW (so we have time to send you the link!) at link below!

🚀 Tired of manual image analysis or scared of scripting? Our self-paced “ImageJ Macro Scripting for Automatic Image Analysis” course makes automation easy—no coding experience needed! Start from scratch & build pro-level macros. www.biovoxxel.de/individual-w... #ImageJ #MacroScripting

Expand your scientific reach by enhancing visual communication. Present your research in a clear, engaging, and easily understandable way - whether in presentations, posters, or publications. Acquire all necessary skills in the Scientific Illustration Inkscape Masterclass. Promo-Code: BUNNY2025

If you train people in ImageJ, Fiji, whatever, even if it isn't your day job, please let us know, and please share this post! Thanks a ton, we really appreciate it. (2/2) forms.gle/C8dUpg8qZkbD... #bioimaging #microscopy #bioimageanalysis

As a fan of @haesleinhuepf.bsky.social, I had the pleasure of teaching a CLIJ course in Taiwan, as part of our first EABIAS training event. And yes, we are sharing the training materials under a CC-BY license! 🤗 doi.org/10.5281/zeno...

First small step into the future op publication figures. Try the interactive publication figure

For a more colorful scientific spring. 🦜🎨💻🔬 The BioVoxxel LUT Channels Tool received a few new standard colors. Check out tools, options and installation BTW: The NEW Scientific Image Editing and Figure Creation online course is coming soon, stay tuned and don't miss! More info and vouchers

Subscribe to the BioVoxxel newsletter and get a 10%-OFF voucher for the Scientific Illustration online course. This offer is limited to the first 25 subscribers and only valid until 5th of April. Don't miss your 10% limited saving! Newsletter pop-up on www.biovoxxel.de/individual-w...

Fantastic NEWS! The successful BioVoxxel workshops will step-by-step become available as online self-learning courses. Scientific Illustration is the first one released and 4 more will follow. Check out the course page: www.biovoxxel.de/individual-w... Enjoy the teaser video youtu.be/qvMHTZAOCrA

An interesting global study on the state of #trust in scientists ⬇️ Worth reading eg where (European) countries stand,how trust differs betw. conservatives and liberals, what scientists should communicate & whether they should be involved in policy-making process. #SciComm #publicengagement #science

Thanks for this very nice publication and the comprehensive summary on #imageanalysis trainings. I can fully corroborate it. It is 100% consistent with my own experience over the last 12 years doing full time bioimage analysis workshops for young life scientists. #bia #microscopy #FIJI #biovoxxel

Jeey! @nfdi4bioimage.bsky.social published their #RDM-related postcards FAIRly (made by Henning Falk, licensed CC-BY 4.0) 🔬💾😍 github.com/NFDI4BIOIMAG...

Digesting some shading, texturing and Geometry Nodes experiments in #Blender. Little test render of an intestine with tissue-like texture and (over-sized 😜) bacteria in schematic toon shader. #SciArt, #SciIllustration, #SciComm

Prep a sparkling #GraphicalAbstract Our 10 steps are out 1️⃣ Message 2️⃣ Pics & Pictograms 3️⃣ Charts 4️⃣ lay out Size 5️⃣ Reading Direction 6️⃣ arrange: Arrows 7️⃣ Text 8️⃣ Color 9️⃣ Tools 🔟 Feedback Get in touch for help. #scicomm #phdlife #DataViz #academicwriting 📊🧪 journals.plos.org/ploscompbiol...

Just listened to a very interesting [Hidden Brain] (open.spotify.com/show/20Gf4IA...) episode on emotional diversity: open.spotify.com/episode/7FBU... A nice example of a interdisciplinary scientific approach holding some enlightening insights.

#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.

Successfully started this week 🎉: The new workshop on scientific illustration - an Inkscape masterclass for life scientists. Generally bookable by graduate programs, institutes, or groups and organizations for scientists and staff. More info: www.biovoxxel.de/workshops/sc...

Deleted X-account today. Reduced overload to single-source destraction.

🚨 JOB ALERT 🚨 The Helmholtz Institute Würzburg is currently #HIRIng a #ScientificCoordinator! 💻 🧪 If you’re seeking an exciting role at the intersection of science and management, apply by December 12. ⬇️ www.helmholtz-hiri.de/en/jobs-tale...

#BIAToolTip No.14 The Color Inspector 3D is a super useful tool to visualize color distribution in different color spaces for RGB images and can facilitate non-quantitative stain segmentation e.g. in IHC stainings. Available in #ImageJ and #Fiji #bioimageanalysis

1) The most important skill (in my humble opinion) for applying and evaluating deep learning tools are strong fundamentals in classical image processing, good experimental design skills and critical thinking. Powerful tool in many, many cases, if used properly, but in many cases not instant magic.

Followed @timnfeinstein.bsky.social most likely due to a starter pack. Liked his posts, checked his profile. Saw that he published a book. Bought it last week. Got it today. Just flipped through it and the first sentence in the preface cracked me up already. Gonna be an interesting read for sure. 🙏

New from a huge cast of amazing #bioimage analysts in the Journal of Cell Science - "The crucial role of bioimage analysts in scientific research and publication" journals.biologists.com/jcs/article/... . Hop into 🧵to learn more! (1/x) #bioimaging #microscopy #bioimageanalyst

I'm just finalising the preprints list for FocalPlane. This week it's on #bioimageanalysis, let me know if you have any recommendations from the last ~6 weeks. You can the archive here: focalplane.biologists.com/tag/preprints/

#BIAToolTip No.13 A Must-Know: the amazing CLIJ2 library from @haesleinhuepf.bsky.social and its IJ macro extensions make image processing and analyses of 2D/3D images on the GPU a breeze and super flexible. Huge function repository, a very neat clij2 assistant and super easy to macro record.

#BIAToolTip No.12 I wanted to highlight information regarding Western Blot analysis which is often performed in questionable ways. If you google for tutorials online many instructions you find are often quite (!) incorrect 🤯. Here some literature links and a suitable tool: GelAnalyzer

IMO from 20 years in research, specializing in assay design with expensive instruments - the most powerful investment a lab can make is in best practices. Collaborate with specialists, pay for the summer course, challenge old habits. The biggest un-accounted cost in research is lost time.

#BIAToolTip No.11 (actually more a processing tip) A variance filter (or edge detection) can facilitate object segmentation in DIC or brightfield images. In the example below it even outperforms cellpose (even after various parameter tunings). Worth a test if custom model training is not feasible.

First, sorry for replying late, did not see the post. There might be a misunderstanding on any side. So, I try to reflect my understanding of it and the rational why I do not include gamma in that tool. Here again the original reference @loicaroyer.bsky.social referred to in his original post... 1/n

#BIAToolTip No.10 (SPECIAL) NEW release of #biovoxxel Figure Tools v4.0.0. Now, interactive merge images can be created as mentioned here: bsky.app/profile/biov... All channel combinations can be checked in the resulting SVG files when opened in the browser.

#BIAToolTip No.9 Catching the ball from @guijacquemet.bsky.social and his NeuroCyto LUTs post. The LUT Channels Tool from the #biovoxxel Figure Tools can be equipped with any LUTs in the IJ lut folder or your favorite LUTs in a subfolder. Comes with all IJ channel functions and a color blind test.

I was listening to @helenajambor.bsky.social in the October FocalPlane Webinar and at minute 27:39 an idea came to my mind. Why not make an interactive publication figure. Here a (still rudimentary) test image for a very simple prototype where all 2 channel combinations of 5 channels can be seen