#imageanalysis — Public Fediverse posts

Registration is open!

Want to better validate your #AI methods in #imageanalysis?

Join our 3-part online workshop on June 3, 9 & 25 at 9-12 PM.

Learn to choose metrics, quantify uncertainty & assess the robustness of rankings.

⏳ Register by May 31 👉 https://bit.ly/Validating-AI-for-Image-Analysis

#imaging #training

@association @helmholtz_hmc

Doing #AI for #imageanalysis? Learn how to validate your results properly:

1️⃣Select appropriate performance metrics
2️⃣Quantify model performance uncertainty
3️⃣Assess the robustness of model comparisons

🗓️ June 3 | 9 | 25, 9-12

Registration opens May 6 👉 https://bit.ly/Validating-AI-for-Image-Analysis

Instructors: Annika Reinke, Helmholtz Imaging, DKFZ & Evangelia Christodoulou, DKFZ

This course is organized in cooperation with HIDA.

#imaging #training @association

Pipeline release! nf-core/lsmquant v1.0.0 - 1.0.0 - Excited Squid!
A pipeline for processing and analysis of light-sheet microscopy images.
Please see the changelog: https://github.com/nf-core/lsmquant/releases/tag/1.0.0

#3dunet #imageanalysis #imageprocessing #lightsheetmicrocopy #segmentation #stitching #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/lsmquant v1.0.0 - 1.0.0 - Excited Squid!
A pipeline for processing and analysis of light-sheet microscopy images.
Please see the changelog: https://github.com/nf-core/lsmquant/releases/tag/1.0.0

#3dunet #imageanalysis #imageprocessing #lightsheetmicrocopy #segmentation #stitching #nfcore #openscience #nextflow #bioinformatics

How Do You Find an Illegal Image Without Looking at It?

https://mahmoud-salem.net/the-invisible-shield

#HackerNews #illegalcontent #digitalprivacy #imageanalysis #cybersecurity

How Do You Find an Illegal Image Without Looking at It?

https://mahmoud-salem.net/the-invisible-shield

#HackerNews #illegalcontent #digitalprivacy #imageanalysis #cybersecurity

How Do You Find an Illegal Image Without Looking at It?

https://mahmoud-salem.net/the-invisible-shield

#HackerNews #illegalcontent #digitalprivacy #imageanalysis #cybersecurity

How Do You Find an Illegal Image Without Looking at It?

https://mahmoud-salem.net/the-invisible-shield

#HackerNews #illegalcontent #digitalprivacy #imageanalysis #cybersecurity

How Do You Find an Illegal Image Without Looking at It?

https://mahmoud-salem.net/the-invisible-shield

#HackerNews #illegalcontent #digitalprivacy #imageanalysis #cybersecurity

Drivers Of Forest Disturbance In Southeast Asia [incl. spatial analysis]
--
https://doi.org/10.1016/j.jag.2026.105220 <-- shared paper 🔗
--
https://github.com/shijuanchen/SEA_forest_dis <-- shared GitHub ‘data repository 🔗
--
#GIS #spatial #mapping #spatialanalysis #spatiotemporal #forest #vegetation #Forestdisturbance #Forestdegradation #Deforestation #remotesensing #SoutheastAsia #Asia #tropicalforests #timeseriesanalysis #geostatistics #disturbance #clearing #planting #agriculture #earthobservation #imagery #CCDC #changedetection #landcover #landuse #change #plantation #cultivation #slashandburn #planning #mitigation #catalogue #conservation #management #landmanagement #machinelearning #imageanalysis #AI

Drivers Of Forest Disturbance In Southeast Asia [incl. spatial analysis]
--
https://doi.org/10.1016/j.jag.2026.105220 <-- shared paper 🔗
--
https://github.com/shijuanchen/SEA_forest_dis <-- shared GitHub ‘data repository 🔗
--
#GIS #spatial #mapping #spatialanalysis #spatiotemporal #forest #vegetation #Forestdisturbance #Forestdegradation #Deforestation #remotesensing #SoutheastAsia #Asia #tropicalforests #timeseriesanalysis #geostatistics #disturbance #clearing #planting #agriculture #earthobservation #imagery #CCDC #changedetection #landcover #landuse #change #plantation #cultivation #slashandburn #planning #mitigation #catalogue #conservation #management #landmanagement #machinelearning #imageanalysis #AI

Drivers Of Forest Disturbance In Southeast Asia [incl. spatial analysis]
--
https://doi.org/10.1016/j.jag.2026.105220 <-- shared paper 🔗
--
https://github.com/shijuanchen/SEA_forest_dis <-- shared GitHub ‘data repository 🔗
--
#GIS #spatial #mapping #spatialanalysis #spatiotemporal #forest #vegetation #Forestdisturbance #Forestdegradation #Deforestation #remotesensing #SoutheastAsia #Asia #tropicalforests #timeseriesanalysis #geostatistics #disturbance #clearing #planting #agriculture #earthobservation #imagery #CCDC #changedetection #landcover #landuse #change #plantation #cultivation #slashandburn #planning #mitigation #catalogue #conservation #management #landmanagement #machinelearning #imageanalysis #AI

Drivers Of Forest Disturbance In Southeast Asia [incl. spatial analysis]
--
https://doi.org/10.1016/j.jag.2026.105220 <-- shared paper 🔗
--
https://github.com/shijuanchen/SEA_forest_dis <-- shared GitHub ‘data repository 🔗
--
#GIS #spatial #mapping #spatialanalysis #spatiotemporal #forest #vegetation #Forestdisturbance #Forestdegradation #Deforestation #remotesensing #SoutheastAsia #Asia #tropicalforests #timeseriesanalysis #geostatistics #disturbance #clearing #planting #agriculture #earthobservation #imagery #CCDC #changedetection #landcover #landuse #change #plantation #cultivation #slashandburn #planning #mitigation #catalogue #conservation #management #landmanagement #machinelearning #imageanalysis #AI

Drivers Of Forest Disturbance In Southeast Asia [incl. spatial analysis]
--
https://doi.org/10.1016/j.jag.2026.105220 <-- shared paper 🔗
--
https://github.com/shijuanchen/SEA_forest_dis <-- shared GitHub ‘data repository 🔗
--
#GIS #spatial #mapping #spatialanalysis #spatiotemporal #forest #vegetation #Forestdisturbance #Forestdegradation #Deforestation #remotesensing #SoutheastAsia #Asia #tropicalforests #timeseriesanalysis #geostatistics #disturbance #clearing #planting #agriculture #earthobservation #imagery #CCDC #changedetection #landcover #landuse #change #plantation #cultivation #slashandburn #planning #mitigation #catalogue #conservation #management #landmanagement #machinelearning #imageanalysis #AI

Position open: Head of the Center for Microscopy and Image Analysis (Core Facility) at the Center for Microscopy and Image Analysis (ZMB) in the University of Zurich, Switzerland.

https://www.nature.com/naturecareers/job/12847076/head-of-the-center-for-microscopy-and-image-analysis-core-facility-/

#microscopy #PhDJobs #academia #ElectronMicroscopy #LightMicroscopy #ImageAnalysis

Last week to subscribe for our FREE Webinar Series on "Mastering Colocalization Analysis"; from raw image to scientific results in minutes. Reserve your seat now!
http://svi.nl/webinarinvitation
#imaging #microscopy #cellbiology #fluorescence #imageanalysis #colocalization

Today our team member Anna Breger tells her story - “Many little twists and turns have brought me to where I am now and I am absolutely thrilled about my interdisciplinary research project working on image analysis and historical music manuscripts.”

➡️ Find her full story at https://hermathsstory.eu/anna-breger/

#AppliedMathematics #ImageAnalysis #Music #InterdisciplinaryResearch #NonTraditionalPathways #DataScience #HerMathsStory

New tutorial from the Galaxy Training Network! Learn how to quantify gel electrophoresis bands using QuPath + Galaxy. Fully open, reproducible, and beginner-friendly.
https://training.galaxyproject.org/training-material/news/2025/08/18/bands_image_analysis.html

@galaxyfreiburg
#Bioinformatics #ImageAnalysis #GelElectrophoresis #OpenScience #ReproducibleResearch #GalaxyProject #QuPath #Bioimaging #LifeSciences #OpenSourceTools #ScienceEducation #DataAnalysis #ResearchTools

New tutorial from the Galaxy Training Network! Learn how to quantify gel electrophoresis bands using QuPath + Galaxy. Fully open, reproducible, and beginner-friendly.
https://training.galaxyproject.org/training-material/news/2025/08/18/bands_image_analysis.html

@galaxyproject
#Bioinformatics #ImageAnalysis #GelElectrophoresis #OpenScience #ReproducibleResearch #GalaxyProject #QuPath #Bioimaging #LifeSciences #OpenSourceTools #ScienceEducation #DataAnalysis #ResearchTools

Last week to apply to the Light-Sheet Image Analysis Workshop.

A five-day practical course on the processing and analysis of light-sheet microscopy imaging data. It will take place in Santiago, Chile, from January 5–9, 2026.

Deadline: August 8.

Learn more and apply here: https://lightsheetchile.cl/light-sheet-image-analysis-workshop-2026-2/

#Microscopy #Lightsheet #ImageProcessing #ImageAnalysis #LatinAmerica #GlobalSouth

👏 Big congrats to Annika Reinke for winning the Hector Foundation Prize 2025 for Metrics Reloaded, setting new standards for AI in image analysis.

Learn more, explore the tool & meet all awardees in a video 👉 https://helmholtz-imaging.de/news/hector-foundation-prize-for-annika-reinke/

#helmholtz #helmholtzimaging #imaging #metrics #metricsreloaded #AI #imageanalysis

@association @DKFZ

Day 3 at #HIconference2025 wrapped with exciting talks on #AI for #imageanalysis, data integration & moonshot projects.

A big thank you to all speakers, chairs & participants!

See you next year!

#HelmholtzImaging #imaging #Helmholtz

Following on from their successful meeting in 2023, @J_Cell_Sci are delighted to announce a second iteration of the Imaging Cell Dynamics Meeting to be held in 2026.

Find out more:

https://www.biologists.com/meetings/jcsimaging/

#Cells #CellDyamics #CellScience #Imaging #JCS #Microscopy #SuperResolutionImaging #ElectronMicroscopy #Tomography #ExpansionMicroscopy #OrganelleDynamics #MembraneTrafficking #CytoskeletalDynamics #TissueDynamics #ImageAnalysis #LightMicroscopy #Microscope

Cheap Endoscopic Camera Helps Automate Pressure Advance Calibration https://hackaday.com/2025/03/21/cheap-endoscopic-camera-helps-automate-pressure-advance-calibration/ #pressureadvance #3dPrinterhacks #imageanalysis #machinevision #calibration #endoscope #extrusion #klipper

Cheap Endoscopic Camera Helps Automate Pressure Advance Calibration - The difference between 3D printing and good 3D printing comes down to attention to... - https://hackaday.com/2025/03/21/cheap-endoscopic-camera-helps-automate-pressure-advance-calibration/ #pressureadvance #3dprinterhacks #imageanalysis #machinevision #calibration #endoscope #extrusion #klipper

I left the other place in one of the early big migrations, but I'm delighted that my employer has also followed suit:

https://bsky.app/profile/visiopharm.bsky.social

If you're over there and want to see what the company is doing in the #DigitalPathology #DeepLearning #ImageAnalysis space, check it out ... or say hello and ask me :)

New deep-learning cell detection pipeline for light-sheet mouse brain image stacks, with an interesting cell-coordinate clustering statistics approach:

A deep learning pipeline for three-dimensional brain-wide mapping of local neuronal ensembles in teravoxel light-sheet microscopy
Attarpour et al., Nature Methods 2025
https://doi.org/10.1038/s41592-024-02583-1

Code: https://github.com/AICONSlab/MIRACL

Documentation: https://miracl.readthedocs.io/

#lightsheet #microscopy #ImageAnalysis #neuroscience

I just noticed an object recognition feature in Apple's photo app. Basically, it detects plants and animals and attempts to identify them. Here it is pretty unnecessary, I can recognise a goat, but it is a cool feature for plants and bugs.

The UI is quite subtle, the info icon morphs into an object specific icon, when something is detected.

#apple #imagerecognition #ImageAnalysis

Having moved from broad #ImageAnalysis to #DigitalPathology, one of the things I miss is analysis of time series data.

Thankfully there are always interesting problems on image.sc to play around with.

https://forum.image.sc/t/best-setting-to-tracking-and-counting-fish-captured-with-high-res-imaging-sonar/104100?u=dnmason

#tracking #fish #sonar

This is a FIJI plugin that can analyze branched structures in a broad range of settings. They started with Microglia, but apparently it's broadly applicable (also works with neurons and even corals). Looks useful for analyzing 2D images.

AutoMorFi: Automated Whole-image Morphometry in Fiji/ImageJ for Diverse Image Analysis Needs
Bouadi ... Tuan Leng Tay, preprint at biorxiv 2024
⁠https://www.biorxiv.org/content/10.1101/2024.07.26.605357v1.full

#neuroscience #microglia #imageanalysis #microscopy #FijiSc

New Python Shiny app for my image analysis course deployed!

This will accompany the lecture on edge detection methods.

https://apps.nicolaromano.net/EdgeDetection/

Source code is here, feel free to reuse!

https://github.com/nicolaromano/BIA4/tree/main/Apps/EdgeDetection

#python #shiny #posit #edgeDetection #imageAnalysis

New Python Shiny app for my image analysis course deployed!

This will accompany the lecture on edge detection methods.

https://apps.nicolaromano.net/EdgeDetection/

Source code is here, feel free to reuse!

https://github.com/nicolaromano/BIA4/tree/main/Apps/EdgeDetection

#python #shiny #posit #edgeDetection #imageAnalysis

New Python Shiny app for my image analysis course deployed!

This will accompany the lecture on edge detection methods.

https://apps.nicolaromano.net/EdgeDetection/

Source code is here, feel free to reuse!

https://github.com/nicolaromano/BIA4/tree/main/Apps/EdgeDetection

#python #shiny #posit #edgeDetection #imageAnalysis

New Python Shiny app for my image analysis course deployed!

This will accompany the lecture on edge detection methods.

https://apps.nicolaromano.net/EdgeDetection/

Source code is here, feel free to reuse!

https://github.com/nicolaromano/BIA4/tree/main/Apps/EdgeDetection

#python #shiny #posit #edgeDetection #imageAnalysis

Alluvial Fan Surfaces And An Age-Related Stability For Cultural Resource Preservation: Nevada Test And Training Range, Nellis Air Force Base, Nevada, USA
--
https://doi.org/10.1016/j.jasrep.2015.05.002 <-- 2015 shared paper
--
[during a presentation recently, I was reminded of this 2015 paper’s content today (on which I was a co-author), back when papers wanted B&W images; I wonder how we might have proceeded now, with AI / Machine Learning…]
#GIS #spatial #mapping #Nevada #USA #military #NellisAFB #NAFB #NTTR #archaeology #spatialanalysis #spatiotemporal #corrleation #basinandrange #geomorphology #sediment #alluvialfans #sheetwash #eolian #erosion #deposition #bioturbation #varnish #desert #desertvarnish #age #dating #corrleation #airforce #indigeneous #sampling #cosmogenic #10Be #insitu #StonewallFlat #fans #water #hydrology #arid #imageanalysis #CulturalResource #Preservation

Alluvial Fan Surfaces And An Age-Related Stability For Cultural Resource Preservation: Nevada Test And Training Range, Nellis Air Force Base, Nevada, USA
--
https://doi.org/10.1016/j.jasrep.2015.05.002 <-- 2015 shared paper
--
[during a presentation recently, I was reminded of this 2015 paper’s content today (on which I was a co-author), back when papers wanted B&W images; I wonder how we might have proceeded now, with AI / Machine Learning…]
#GIS #spatial #mapping #Nevada #USA #military #NellisAFB #NAFB #NTTR #archaeology #spatialanalysis #spatiotemporal #corrleation #basinandrange #geomorphology #sediment #alluvialfans #sheetwash #eolian #erosion #deposition #bioturbation #varnish #desert #desertvarnish #age #dating #corrleation #airforce #indigeneous #sampling #cosmogenic #10Be #insitu #StonewallFlat #fans #water #hydrology #arid #imageanalysis #CulturalResource #Preservation

Alluvial Fan Surfaces And An Age-Related Stability For Cultural Resource Preservation: Nevada Test And Training Range, Nellis Air Force Base, Nevada, USA
--
https://doi.org/10.1016/j.jasrep.2015.05.002 <-- 2015 shared paper
--
[during a presentation recently, I was reminded of this 2015 paper’s content today (on which I was a co-author), back when papers wanted B&W images; I wonder how we might have proceeded now, with AI / Machine Learning…]
#GIS #spatial #mapping #Nevada #USA #military #NellisAFB #NAFB #NTTR #archaeology #spatialanalysis #spatiotemporal #corrleation #basinandrange #geomorphology #sediment #alluvialfans #sheetwash #eolian #erosion #deposition #bioturbation #varnish #desert #desertvarnish #age #dating #corrleation #airforce #indigeneous #sampling #cosmogenic #10Be #insitu #StonewallFlat #fans #water #hydrology #arid #imageanalysis #CulturalResource #Preservation

Alluvial Fan Surfaces And An Age-Related Stability For Cultural Resource Preservation: Nevada Test And Training Range, Nellis Air Force Base, Nevada, USA
--
https://doi.org/10.1016/j.jasrep.2015.05.002 <-- 2015 shared paper
--
[during a presentation recently, I was reminded of this 2015 paper’s content today (on which I was a co-author), back when papers wanted B&W images; I wonder how we might have proceeded now, with AI / Machine Learning…]
#GIS #spatial #mapping #Nevada #USA #military #NellisAFB #NAFB #NTTR #archaeology #spatialanalysis #spatiotemporal #corrleation #basinandrange #geomorphology #sediment #alluvialfans #sheetwash #eolian #erosion #deposition #bioturbation #varnish #desert #desertvarnish #age #dating #corrleation #airforce #indigeneous #sampling #cosmogenic #10Be #insitu #StonewallFlat #fans #water #hydrology #arid #imageanalysis #CulturalResource #Preservation

Alluvial Fan Surfaces And An Age-Related Stability For Cultural Resource Preservation: Nevada Test And Training Range, Nellis Air Force Base, Nevada, USA
--
https://doi.org/10.1016/j.jasrep.2015.05.002 <-- 2015 shared paper
--
[during a presentation recently, I was reminded of this 2015 paper’s content today (on which I was a co-author), back when papers wanted B&W images; I wonder how we might have proceeded now, with AI / Machine Learning…]
#GIS #spatial #mapping #Nevada #USA #military #NellisAFB #NAFB #NTTR #archaeology #spatialanalysis #spatiotemporal #corrleation #basinandrange #geomorphology #sediment #alluvialfans #sheetwash #eolian #erosion #deposition #bioturbation #varnish #desert #desertvarnish #age #dating #corrleation #airforce #indigeneous #sampling #cosmogenic #10Be #insitu #StonewallFlat #fans #water #hydrology #arid #imageanalysis #CulturalResource #Preservation

Very excited that our whole-mouse-brain analysis pipeline - DELiVR - is published now at Nature Methods. With DELiVR, we built an open-source, easy-to-use pipeline for analyzing image stacks from cleared mouse brains.

Paper: https://www.nature.com/articles/s41592-024-02245-2
Code: https://github.com/erturklab/delivr_cfos
Docker containers, test dataset, handbook: https://www.discotechnologies.org/DELiVR/

#neuroscience #tissueclearing #lightsheet #imageanalysis

Spatially Balanced Sampling And Ground-Level Imagery For Vegetation Monitoring On Reclaimed Well Pads
--
https://doi.org/10.1111/rec.12956 <-- shared paper
--
#GIS #spatial #mapping #energy #oilandgas #oilandgasindustry #oilandgasexploration #wellpads #reclamation #spatialanalysis #naturalgas #development #northamerica #USWest #landuse #ownership #stakeholders #vegetation #metric #esosystem #SamplePoint #systematic #sampling #imageanalysis #remotesensing #spatialstatistics #monitoring #regulations #seeding #costs #naturalresources #standardprotocols #defensibility #costsavings #observerbias #GPS #camera #Wyoming #WY

Here's a question for #ImagingScientist #Microscopy folk and #ImageAnalysis people (but also #grammar if that's your thing).

I'm using #DAPI, #SYTOX or something else to label the DNA in cells. I want to segment them based on this.

Am I doing:
A) Nuclei Detection
B) Nucleus Detection
C) Nuclear Detection
D) Other (please comment!)

Please boost and tag any #Imaging folks you know. I need to settle a dispute.

Wishing it was #FluorescenceFriday already.

Here's a question for #ImagingScientist #Microscopy folk and #ImageAnalysis people (but also #grammar if that's your thing).

I'm using #DAPI, #SYTOX or something else to label the DNA in cells. I want to segment them based on this.

Am I doing:
A) Nuclei Detection
B) Nucleus Detection
C) Nuclear Detection
D) Other (please comment!)

Please boost and tag any #Imaging folks you know. I need to settle a dispute.

Wishing it was #FluorescenceFriday already.

Here's a question for #ImagingScientist #Microscopy folk and #ImageAnalysis people (but also #grammar if that's your thing).

I'm using #DAPI, #SYTOX or something else to label the DNA in cells. I want to segment them based on this.

Am I doing:
A) Nuclei Detection
B) Nucleus Detection
C) Nuclear Detection
D) Other (please comment!)

Please boost and tag any #Imaging folks you know. I need to settle a dispute.

Wishing it was #FluorescenceFriday already.

Here's a question for #ImagingScientist #Microscopy folk and #ImageAnalysis people (but also #grammar if that's your thing).

I'm using #DAPI, #SYTOX or something else to label the DNA in cells. I want to segment them based on this.

Am I doing:
A) Nuclei Detection
B) Nucleus Detection
C) Nuclear Detection
D) Other (please comment!)

Please boost and tag any #Imaging folks you know. I need to settle a dispute.

Wishing it was #FluorescenceFriday already.

Here's a question for #ImagingScientist #Microscopy folk and #ImageAnalysis people (but also #grammar if that's your thing).

I'm using #DAPI, #SYTOX or something else to label the DNA in cells. I want to segment them based on this.

Am I doing:
A) Nuclei Detection
B) Nucleus Detection
C) Nuclear Detection
D) Other (please comment!)

Please boost and tag any #Imaging folks you know. I need to settle a dispute.

Wishing it was #FluorescenceFriday already.

New #ThingUmbrella example (#147): Computing the RGB waveform[1] of an image using slit scanning & column-based histograms via https://thi.ng/pixel & https://thi.ng/transducers.

Demo (images are only processed locally on your own device):
https://demo.thi.ng/umbrella/pixel-waveform/

Source code:
https://github.com/thi-ng/umbrella/blob/develop/examples/pixel-waveform/src/index.ts

This is by far not the fastest way to compute this, but it explains the principle approach more clearly. Almost exactly 13 years ago (to the day), I used the same with Java and my toxiclibs to transform images, driving altogether 768 granular oscillators to create super complex, constantly morphing drone sounds. Some selected audio snippets & images are here:

https://soundcloud.com/toxi/sets/granular-synthesis
https://www.flickr.com/photos/toxi/sets/72157625235467871/

[1] It's called "waveform scope" in Adobe Premiere, even though the term is misleading...

#ThingUmbrella #ImageProcessing #ImageAnalysis #Audio #GranularSynthesis #Drone #DSP #TypeScript #JavaScript #OpenSource

It's #MuscleMonday (?!) and as someone who does #BioimageAnalysis in #DigitalPathology these days, I always like to see #SiriusRed stains.

The yellow/red contrast makes the job so much easier!

#Muscle #histology #pathology #ImageAnalysis

Yesterday, I gave a lecture about #SMLM as part of Bryan Millis's #Microscopy Education Program "Widening the Lens"🔬 sponsored by #cziscience #imagingthefuture - You can find my presentation on #figshare - Feel free to reach out in case of questions - Enjoy 😀👉 https://figshare.com/articles/presentation/Single-Molecule_Localization_Microscopy_Theoretical_Basis_and_Practical_Guide/19902511

#superresolution #nanoscopy #womeninscience #imageanalysis #imaging