Mastodawn

We are happy to announce the "NL-BioImaging Advanced Image Analysis course for biologists", 21–24 September at Erasmus MC in Rotterdam.

More info and register here:
https://courses.microscopie.nl/?event_id=527

Four hands-on days going from segmentation to full pipelines:
- Automate reproducible image processing with Jupyter notebooks
- Assess classical and AI approaches for specific challenges
- Train and optimise deep learning models on biological datasets
- Document and publish reproducible image analysis pipelines

Guidance from experts across the Netherlands.
Limited to 20 participants.

Feel free to tag colleagues or share this with your network!

#bioimaging #imageanalysis #course #openscience
#cellpose #OMERO #Jupyter #napari #FAIRdata
NL-Bioimaging #NVvM

Stephen Royle 3d ago

I didn't realise that Gabriel Landini - who contributed many scripts and tools to ImageJ - died last year. There's a little tribute to him here.

https://forum.image.sc/t/unable-to-download-local-threshold-plugin/121491/4

#ImageAnalysis #Microscopy #CellBiology

∫∀⊂∅5d ago

Very interesting study with alarming results. And we're not talking about the LLM's from big tech, but tools that are regarded as a useful deployment of pattern recognition systems.
Maybe still very useful, but we have think very carefully about the way we deploy them.
#AI #dataanalysis #patternrecognition #imageanalysis #healthcare
https://www.nature.com/articles/d41586-026-01947-1

Is AI ruining our skills? Early results are in — and they’re not good

Reliance on artificial-intelligence tools degrades the abilities of physicians and software engineers, studies show.

Juan Nunez-Iglesias 5d ago

Job alerts! Senior Image Data Scientist (x2!) and Senior Scientific Software Developer - Bioimage Informatics at the Center for Bioimage Informatics at St Jude Children's Research Hospital. These seem pretty nice.

https://forum.image.sc/t/opportunities-st-jude-childrens-research-hospital/121557

#GetFediHired #ImageAnalysis #Imaging

nf-core Jun 18

Pipeline release! nf-core/lsmquant v1.0.2 - 1.0.2 - 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/1.0.2

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

Release 1.0.2 - Excited Squid · nf-core/lsmquant

Added PR#62 - Template update zenodo DOI to cite all versions Fixed new metromap (smaller nf-core logo, fix typo) PR#69 - Fix to prevent stitching from starting twice when “NM_variables” is spec...

GitHub

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David Mason Jun 16

@helenajambor Preibisch's "new Lenna" is legendary in #ImageAnalysis circles!

Darren Jun 4

I have been building a smart water bowl to measure pet water consumption. Scale + camera + raspberry pi. I'm at the image recognition part of training a neural net to identify the pet involved (we have 2 black labs, 1 black cat and 2 tuxedos) and it's harder than you'd think... #imageAnalysis #catsofMastodon #dogsofmastodon

nf-core Jun 2

Pipeline release! nf-core/lsmquant v1.0.1 - Excited Squid Patch!
A pipeline for processing and analysis of light-sheet microscopy images.
Please see the changelog: https://github.com/nf-core/lsmquant/releases/tag/1.0.1

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

Release Excited Squid Patch · nf-core/lsmquant

Fixed PR#57 - Fix input declaration of the model file for the module: numorph3dunet to be reused for all inputs. Remove conda batch from readme, the pipeline does not support conda. PR#66 - Set ma...

GitHub

Fabrizio Musacchio Jun 1

In the latest issue of #JCellSci, with Stefania Marcotti, Lina Gerontogianni, Gavin Kelly, & David J. Barry, a reanalysis of images from the #IDR to answer the age-old question:

How do you tell #statistical #significance from #biological significance?

📝 https://doi.org/10.1242/jcs.264367

#Neuroscience #Statistics #Biology #imageanalysis #Bioimaging #imaging #bioimageanalysis