Our latest #preprint list is now available. This week we focus on new research in #bioimageanalysis, including a number of methods using generative AI. Let us know if we have missed any recent preprints and we’ll add them to our list.
https://focalplane.biologists.com/2023/07/14/microscopy-preprints-bioimage-analysis-tools-12/
#microscopy

If you gain biological insight from #microscopy images, then check out the ‘Beyond pretty pictures’ subgroup at #CellBio2023, with tandem talks highlighting collaborative research between experimental & computational biologists.
Abstract deadline: 1 August
https://focalplane.biologists.com/2023/07/06/beyond-pretty-pictures-subgroup-at-cell-bio-2023/
#CellBiology #bioimageanalysis #conference

I have to be up in 5 hours to catch a flight but instead of sleeping, I'm noodling with #ImageJ scripts to detect soil boundaries.

https://forum.image.sc/t/how-to-crop-large-number-of-plant-image-at-root-shoot-junction/82567/4?u=dnmason

#NerdSniped #ImageAnalysis #BioImageAnalysis #PlantScience #Fiji

I have to be up in 5 hours to catch a flight but instead of sleeping, I'm noodling with #ImageJ scripts to detect soil boundaries.

https://forum.image.sc/t/how-to-crop-large-number-of-plant-image-at-root-shoot-junction/82567/4?u=dnmason

#NerdSniped #ImageAnalysis #BioImageAnalysis #PlantScience #Fiji

This is the kind of quality banter you can expect if we work together.

#DigitalPathology #Retina #Pathology #Histology #BioImageAnalysis #ImageAnalysis

First experience last night dealing with a user on image.sc who provided #chatgpt #code

https://forum.image.sc/t/macro-for-sequence-image-with-respective-roi/80971/5?u=dnmason

It's fascinating to see how the code _looks_ right, but is fundamentally wrong (no images opened, made up functions &c). However you can't know this without having existing experience in #ImageJ scripting.

My biggest concern though is that the promise of easy wins, makes people ignore the existing documentation.

#BioImageAnalysis #ScienceMastodon

@symvou Adding in a couple of hashtags for visibility
#BioImageAnalysis #ImagingScientist #ImageAnalysis #JobOpportunity

There's a great #JobOpportunity in #BioImageAnalysis at Edinburgh uni, who are looking for an #ImagingScientist to support their new #Fluorescence #Multiplex capabilities.

https://forum.image.sc/t/the-institute-for-regeneration-and-repair-imaging-facility-in-edinburgh-scotland-is-seeking-to-recruit-an-imaging-specialist/79416?u=dnmason

#ImageAnalysis #Jobs #Akoya #Visiopharm #Phenocycler #Phenotyping

Some years ago, I wrote an interactive #BioImageAnalysis with #Fiji / #ImageJ training course.

Every now and then it pops up in my timeline and it feels amazing that people are still using it and finding it helpful!

https://twitter.com/Rashi__Kumar/status/1640772152516575232

Are you a #Fiji / #ImageJ user? What do you think about the way the software updates when you open it? Can you think of a better way? Share your opinion!

https://forum.image.sc/t/offer-fiji-update-when-closing-the-application/78016?u=dnmason

#BioImageAnalysis #ImageAnalysis

Small contribution, as joining late in the process but I strongly agree with the checklists for publishing understandable & accessible images & image analyses. #BioImageAnalysis community striving for positive change for reproducible science.
Preprint: https://arxiv.org/abs/2302.07005

Just in case you thought #ImageAnalysis was all about cells

https://forum.image.sc/t/is-facial-recognition-of-racoons-possible-with-deeplabcut/76826/2?u=dnmason

#DeepLabCut #BioimageAnalysis

Playing around with machine learning to run #BioImageAnalysis. I was a bit skeptical at first, but I’m fairly happy with the results I’m getting!

Happy #FluorescenceFriday !

Going through some slides for a talk on Nuclear vs Cell segmentation and found this beauty.

#Bioimageanalysis
#DigitalPathology

RT @psobolewskiPhD
Super impressive new @napari_imaging plugin:
Svetlana: a Supervised Segmentation Classifier for Napari
https://www.napari-hub.org/plugins/napari-svetlana
If you have segmented images, it helps you classify and quantify.
Tutorial video:
https://www.youtube.com/watch?v=u_FKuHta-RE
#ML #BioimageAnalysis

My #introduction: I have a keen interest in advanced #microscopy for the live sciences, #Bioimaging and #BioImageAnalysis. As a Light Microscopy Core Facility Manager, I use my expertise to provide an excellent service for scientists at the CRUK Cambridge Institute. 🔬 🦠 🔬 Shown below is a 3D fluorescence microscopy image of an organoid, with nuclei in cyan, actin in yellow and cell junctions in magenta in different views:

My #introduction: I have a keen interest in advanced #microscopy for the live sciences, #Bioimaging and #BioImageAnalysis. As a Light Microscopy Core Facility Manager, I use my expertise to provide an excellent service for scientists at the CRUK Cambridge Institute. 🔬 🦠 🔬 Shown below is a 3D fluorescence microscopy image of an organoid, with nuclei in cyan, actin in yellow and cell junctions in magenta in different views:

RT @petebankhead@twitter.com

QuPath v0.4.0 is now available!

Download it at https://qupath.github.io

#opensource #bioimageanalysis #digitalpathology #java #javafx

🐦🔗: https://twitter.com/petebankhead/status/1599131758284271618

If you're new to Mastodon and looking for a bunch of fantastic #BioImageAnalysis folk to follow, check out whose talking and tooting at #CBIAS2022 !

If you're new to Mastodon and looking for a bunch of fantastic #BioImageAnalysis folk to follow, check out whose talking and tooting at #CBIAS2022 !