Mastodawn

@elab @rami @maels @Fairy @neuronflow #neuroscience #preprint #lightsheet

Preprint alert!

Love deep learning for image analysis but lack the coding skills? We introduce DELiVR, a game-changer in brain-wide cell analysis. No coding required, our Fiji Plug-in does the magic. Fantastic collaborative work with my @elab colleagues Doris Kaltenecker and @rami!🧵👇🏼 1/n https://www.biorxiv.org/content/10.1101/2023.05.18.540970v1.full.pdf

@elab @rami 🧠 What makes DELiVR stand out? It's a robust deep-learning pipeline for mapping cFos+ cells in whole brains. Combining tissue clearing, light-sheet microscopy, VR annotation & deep learning, it comes in an easy-to-use FIJI plugin and docker container!

Thread over at twitter: https://twitter.com/erturklab/status/1660978290687975431

Ali M. Erturk on Twitter

“Want to use deep learning for image analysis but lack the coding skills? We introduce DELiVR, a game-changer in brain-wide cell analysis. No coding required, our Fiji Plug-in does the magic. Hats off to @Dorie00, @Rami96614090, @moritz_negwer! 🧵👇🏼 1/n https://t.co/5u82x0XCmY”

Twitter

@elab @rami 📚 Understanding the status quo: Tissue clearing and fluorescent imaging techniques have revolutionized protein expression analysis in whole specimens. By immunostaining for immediate early genes like c-Fos, we get a comprehensive view of neuronal activity.
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@elab @rami 🎯 But there are challenges: Current methods often lack sensitivity and specificity, and while deep learning offers solutions, it requires a lot of training data. Moreover, many of the existing deep learning methods aren't user-friendly for biologists.
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@elab @rami 💡 Introducing DELiVR - our answer to these challenges: a deep learning solution for brain-wide cell analysis, it uses a more accurate and faster VR-based annotation and comes with a user-friendly FIJI plugin.
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@elab @rami 🕹️ The VR advantage: The bottleneck for training a powerful deep learning solution is often the amount of annotated data. Traditional 2D annotation methods are time-consuming, so we turned to VR for a faster and more reliable approach.
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http://discotechnologies.org/DELiVR/Supplementary_Video_2_Segmentation_Syglass_v01.mp4