iiinova — where your digital self keeps evolving

BioVoxxel (Jan Brocher) @biovoxxel.de · 26/11/2025

Beautiful images ≠ usable data. 🎨💻 Ask an image analysis expert BEFORE you start experiments. 20 min prep beats weeks of lost experiments, sweat, tears and frustration. Read more! bit.ly/46mYBL7 Make BioVoxxel your image analyst of choice youtu.be/2Xo7_wQucKk #BioImageAnalysis #Microscopy

3D Cell Segmentation and Neighbor Analysis (BioVoxxel)

Jean-Yves Tinevez @jytinevez.bsky.social · 20/11/2025

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Reposted by BioVoxxel (Jan Brocher)

We just released a new major version of TrackMate (v8), the cell and organelle tracking plugin of Fiji. It ships many new features, detailed below, but that are articulated around the following:

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BioVoxxel (Jan Brocher) @biovoxxel.de · 19/11/2025

To ask, or not to ask? 🎭 already Shakespear knew: “Before thou clicketh ‘Acquire’, consult thy analyst.” Doing image analysis? Check image quality, labels, resolution, metadata with your imaging analyst first — your future self will thank you! Read more: bit.ly/46mYBL7 #Microscopy #BioImaging

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Bio-Imaging with Shakespeare | LinkedIn

Biweekly takes on bio-image analysis, processing techniques, insight into tools and trade‑offs as well as best practices

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BioVoxxel (Jan Brocher) @biovoxxel.de · 14/11/2025

And for those that don't know what a handpan is or sounds like... Here a true master among many of the instrument. Enjoy listening and support the handpan musicians to protect the freedom of playing and sharing its sound with the world 🌎 🎶 🕊 youtu.be/NSKxvLWqyOY?...

Seeds of Growth (1111hz) | 1 hour handpan music | Malte Marten

YouTube video by Malte Marten

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BioVoxxel (Jan Brocher) @biovoxxel.de · 14/11/2025

If you ever heard handpan music, you might have been enchanted by its mesmerizing sound. This is in danger and the handpan might become an "illegal" instrument (if sth. like that ever existed). Please watch the info video and if you feel like and can, help to protect it! youtu.be/6fISj2t0GA8?...

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BioVoxxel (Jan Brocher) @biovoxxel.de · 14/11/2025

😂 is there a word for that in any language? I would at least not know any suitable one in German, English nor Spanish for your description. Please enlighten me 💡

BioVoxxel (Jan Brocher) @biovoxxel.de · 12/11/2025

Doing image analysis? You struggle with object extraction, automation, or state-of-the-art ML tools? Want to streamline workflows & get unbiased data! Learn all of that and more with BioVoxxel Online Courses Don't miss out on the expiring 2025 discounts — Enroll NOW! #ImageAnalysis #Microscopy

Basic Microscopic Image Processing and Analysis

ImageJ Macro Scripting for Automatic Image Analysis

From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis

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Reposted by BioVoxxel (Jan Brocher)

BioImaging North America @bioimagingna.bsky.social · 19/09/2025

#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

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BioVoxxel (Jan Brocher) @biovoxxel.de · 10/11/2025

Ever wondered if analyzing your images by using intensity Z-projections impacts your data? Happy to announce my guest article in Microscopy & Analysis on that topic. It's a very short read but worth for everyone dealing with image analysis! buff.ly/KJ147tI #Microscopy #ZProjection #ImageAnalysis

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BioVoxxel (Jan Brocher) @biovoxxel.de · 05/11/2025

Colocalization isn't just "overlap"—it's potentially 4 distinct analyses or more. Check out how to dissect colocalization analysis and get a glance on pitfalls and methods to report robust colocalization results. Read newsletter now! bit.ly/46mYBL7 #Microscopy #BioImageAnalysis #Colocalization

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BioVoxxel (Jan Brocher) @biovoxxel.de · 24/10/2025

Happy "#FluorescentFriday", actually luminescence 🌌 🌈 Just feel like sharing some incredible moments recently captured near Tromsø, Norway Experiencing auroras in nature makes me feel tiny and special at the same time. It puts daily life into perspective & sparks huge gratefulness 💚 #Auroras

BioVoxxel (Jan Brocher) @biovoxxel.de · 22/10/2025

🧠 Even in the age of AI, classical image filters still matter! They reduce noise, preserve edges, and boost segmentation + ML performance. Filter smart — shape what your algorithm sees. 🔗 Read more: “To filter, or not to filter?” #ImageAnalysis #AI #Microscopy #Segmentation bit.ly/46mYBL7

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Reposted by BioVoxxel (Jan Brocher)

Jean-Yves Tinevez @jytinevez.bsky.social · 07/10/2025

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...

forum.image.sc

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...

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Reposted by BioVoxxel (Jan Brocher)

Torsten Wittmann @microtubule.bsky.social · 08/10/2025

Playing around with how to represent volume in #Snouty light sheet data. Here is a dividing hiPSC with endogenously tagged histone in all three orthogonal projections. Bluer is further away. If anything, it distracts from politics.

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BioVoxxel (Jan Brocher) @biovoxxel.de · 08/10/2025

🔬 Blinded by colors? Color ≠ Intensity! Quantifying intensities from RGB images (e.g. fluorescence, blots, ...) is mostly misleading! Check your image data type carefully! Learn more in Newsletter No. 5 - To analyze RGB images, or NOT to analyze RGB images? Read and subscribe: bit.ly/46mYBL7

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BioVoxxel (Jan Brocher) @biovoxxel.de · 25/09/2025

Really nice. Looks cool and all without fancy equipment 👏🎬👌

BioVoxxel (Jan Brocher) @biovoxxel.de · 24/09/2025

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

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BioVoxxel (Jan Brocher) @biovoxxel.de · 24/09/2025

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

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BioVoxxel (Jan Brocher) @biovoxxel.de · 12/09/2025

To this end, the biweekly "Bio-Imaging with Shakespeare" LinkedIn Newsletter might be of interest. It discusses different aspects of image processing, analysis and visualization techniques and outlines solutions for some issues mentioned in the article from @jencwaters.bsky.social. bit.ly/46mYBL7

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Bio-Imaging with Shakespeare | LinkedIn

Biweekly takes on bio-image analysis, processing techniques, insight into tools and trade‑offs as well as best practices

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Reposted by BioVoxxel (Jan Brocher)

Rylie Walsh @ryliewalsh.bsky.social · 11/09/2025

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.

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BioVoxxel (Jan Brocher) @biovoxxel.de · 10/09/2025

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

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BioVoxxel (Jan Brocher) @biovoxxel.de · 30/08/2025

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!🏃‍♂️

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BioVoxxel (Jan Brocher) @biovoxxel.de · 27/08/2025

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

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BioVoxxel (Jan Brocher) @biovoxxel.de · 21/08/2025

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!🏃‍♂️🏃‍♀️

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BioVoxxel (Jan Brocher) @biovoxxel.de · 20/08/2025

BlueSky Summer Sale starting tomorrow 8:00 AM (CET) for all individual online courses. Make sure you are ready for the run: 10% Off for the first 10 that enroll in the next 10 days. Check out the courses, so you are ready to choose faster then your competitors 🏃‍♀️ 🏅 buff.ly/o64cW9Y

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BioVoxxel (Jan Brocher) @biovoxxel.de · 20/08/2025

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

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BioVoxxel (Jan Brocher) @biovoxxel.de · 14/08/2025

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

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BioVoxxel (Jan Brocher) @biovoxxel.de · 13/08/2025

Eager to stir curiosity and foster dialogue on varied viewpoints? Connect with me on LinkedIn, subscribe to the newsletter (Follow here: buff.ly/cLPh8eZ), and spread the word within your network. Let's engage and exchange ideas! #BioImaging #ImageAnalysis #BioVoxxel #Conversation

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BioVoxxel (Jan Brocher) @biovoxxel.de · 13/08/2025

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

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🧗 Free Climber: From Pixels to Patterns: Applied Machine Learning Tools for Advanced Image Analysis Reach the summit with ease and savely by applying state of the art #machinelearning and #deeplearning tool (almost) without programming (all GUI based) and connect them in #Fiji youtu.be/lee4OiV5E6g

From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis

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🏔 Climber: Image Analysis Automation with ImageJ Macro Scripting Take image analysis automation to the next level. Without any prior programming knowledge, this course will take you the fear if hights and complexity of scripting step-by-step youtu.be/OaXdxMdaFUE #ImageJ #Fiji #Macros #Programming

ImageJ Macro Scripting for Automatic Image Analysis Online Course

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🥾 Hiker: Basic Microscopic Image Processing and Analysis Learn all the basics of #imagesegmentation to manage flexible #automation of area and object extraction including #qualitycontrol for less bias and reduced errors. youtu.be/s2T3B5Q8A7c #ImageJ #Fiji #bioimageanalysis #microscopy

Online Course: Basic Microscopic Image Processing and Analysis Online Course

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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

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🌍 Courses are available worldwide 💰 Now at reduced promo prices! If you're in #life_sciences, struggling with image analysis, automation, or ML tools — these are made for you. ENROLL👇 www.biovoxxel.de/individual-w... myablefy.com/s/biovoxxel #microscopy #bioimaging #training #imageanalysis

biovoxxel.de

Individual Workshops

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🔥 The Image Analysis Hero Bundle Get all 3 courses in one unbeatable package! Everything from foundations over analysis automation to ML. Level up from confused to confident, beginner to analysis hero. 🦸‍♀️🦸‍♂️ Your complete training path in scientific image analysis. myablefy.com/s/biovoxxel/...

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3️⃣ From Pixels to Patterns: Applied Machine Learning for Image Analysis Go beyond the basics—learn how to apply ML tools to segment, classify & quantify complex images. 🚀 Ideal for life science image data analysis #MachineLearning #bioimageanalysis youtu.be/lee4OiV5E6g

From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis

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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

ImageJ Macro Scripting for Automatic Image Analysis Online Course

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1️⃣ Basic Microscopic Image Processing and Analysis New to image analysis? Want to avoid manual tasks & reduce bias? Start strong 🦾! Learn correct analysis of microscopy data with confidence. 💡 For beginners & those seeking a structured foundation. #biology #microscopy #imaging youtu.be/s2T3B5Q8A7c

Basic Microscopic Image Processing and Analysis Online Course

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Aafke Gros @aafkegros.bsky.social · 23/05/2025

🎉 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

Image Analysis Automation with ImageJ Macro Scripting

From Pixels to Patterns: Applied Machine Learning Tools for Advanced Image Analysis

Image Analysis Hero Bundle containing 3 courses
1. Basic Microscopic Image Processing and Analysis
2. Image Analysis Automation with ImageJ Macro Scripting
3. From Pixels to Patterns: Applied Machine Learning Tools for Advanced Image Analysis

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Reposted by BioVoxxel (Jan Brocher)

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...

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Reposted by BioVoxxel (Jan Brocher)

Robert Haase @haesleinhuepf.bsky.social · 20/05/2025

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...

focalplane.biologists.com

Quality assurance of segmentation results - FocalPlane

Quality assurance of segmentation results - Bio-image Analysis with Napari

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BioVoxxel (Jan Brocher) @biovoxxel.de · 07/05/2025

Sorry, I meant to specify the cpsam model path under model_path (not --pretrained_model)!