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

👩‍💻🔬 First part of the image analysis continuing education program for industry organized by
@foco-unil-epfl.bsky.social
and the Center for Imaging ✔️

Great energy, hands-on learning, and inspiring discussions Thanks to all participants 🙌🏼
Looking forward to what’s next!

#ImageAnalysis

🔬 Registration is open for our pilot Introduction to napari Workshop!

napari is a powerful open-source image viewer for scientific data analysis in Python. This hands-on workshop will get you exploring multi-dimensional datasets fast.

✅ Only $20 USD
✅ Limited to 20 people
✅ Perfect for biologists, imaging specialists & data scientists

Two workshops at two different times.

#napari #Python #ImageAnalysis #DataScience #OpenSource

[Show GN: AI 이미지 스타일 코치 (연예인 닮은꼴)

AI 이미지 스타일 코치 서비스인 'Show GN'이 사진 한 장을 분석하여 사용자의 분위기와 이미지에 맞는 스타일을 추천해주는 서비스입니다. 연예인 닮은꼴 비교가 아닌, 분위기 기반의 스타일 코칭을 제공합니다.

https://news.hada.io/topic?id=26147

#ai #style #recommendation #fashion #imageanalysis

What would you align sets of multiple (~20) large (2-4 Gb) #microscopy images?

For smaller subset images ImageJ plugins for transformations based on SIFT landmark correspondence work well. However standard ImageJ (bioformats) file handling doesn’t cope well with such large files. For plugins handling large file manipulation (BigData family) or chunked (e.g. zarr) storage in turn I don’t know how to implement SIFT (or similar) - e.g. for BigWarp I can only find manual landmark annotation, i.e. no option to create landmarks via other plugins.

My images are iterative fluorescence whole slide scans of the same slide with a constant nuclear stain and varying other stains. There is some x/y shift and rotation as well as warping - nothing major, but I need nearly pixel perfect alignment (e.g. QuPath+Warpy worked well on larger images but was too imprecise).
Stitching happens on the fly during imaging and I’m not sure I can extract the tiles faithfully, so the ASHLAR pipeline didn’t seem applicable. I’ve seen VALIS recommended, but implementation seemed daunting and since the nuclear stain provides reasonable fiducial points the workflow seemed an overkill.

Ideally I would want a scripted solution as this has to scale up to hundreds of such sets eventually and downstream processing is in python+R anyhow.

#imageanalysis #spatial #imaging