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QuPath and scripting - why isn't it easier?

Posted by , on 29 March 2024

As I explained in my previous post, this journey began because I needed to learn how to master QuPath. I turned it into a vlogging affair to be held accountable, help others, and use it to find common user problems. For the last six weeks I have explored all the ways QuPath can easily help
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From Zero to QuPath Hero - A journey unveiled

Posted by , on 22 March 2024

Laura, a postdoc researcher in biomedical image analysis and artificial intelligence, embarked on her journey with a dedication to improving image analysis tools after completing her PhD at Universidad Carlos III, Madrid. Joining the QuPath team in June 2023, she found an ideal environment to contribute her expertise and innovate in the field. Despite facing
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“Image analysis workshop” in Dublin (Ireland) - 24-25/04/2024

Posted by , on 14 March 2024

This two-day workshop on April 24th-25th 2024 is designed to empower microscopists and researchers with the necessary skills and tools to confidently analyse their data. Under the instruction of experienced core facility staff from the Francis Crick Institute and King’s College London, participants will be introduced to open-source tools such as FIJI and napari, and
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FocalPlane features... microscopy-based outreach

Posted by , on 11 March 2024

The first webinar of our new series of FocalPlane features... focussed on microscopy-based outreach. We hosted fantastic talks from Paola Moreno-Roman from Foldscope Instruments and Martin Jones from The Francis Crick Institute and we share the recordings here.
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Need Deep Learning support for your image analysis project?

Posted by , on 5 February 2024

The Second AI4Life Open Call, tailored to offer Deep Learning support to life scientists dealing with image analysis challenges, is open.
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behind DeXtrusion: an automated pipeline to detect epithelial cell extrusion through machine learning

Posted by , on 6 October 2023

The problem In animals, epithelial tissue covers most of our organs. In order to create the very intricate and complex shapes of these organs, these tissues are drastically remodelled during embryogenesis through growth and shape changes. Once they achieve these final shapes, they maintain their cell number in a dynamic equilibrium. Both of these mechanisms,
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Light Microscopy Specialist at Virginia Tech

Posted by , on 21 September 2023

The Fralin Life Sciences Institute (FLSI) at Virginia Tech is looking for a highly motivated individual to lead the development of a light microscopy imaging core facility, serve as its manager, and support research groups with microscopy needs on Virginia Tech’s Blacksburg campus. Application review will start on Oct 13th. The Light Microscopy Specialist will
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PoLBIAS23 - Event Reflections and Revelations

Posted by , on 8 September 2023

Reflections and Revelations: Highlights from #PoLBIAS23 - A Symposium on Bioimage Analysis. This blog showcases a summary, as well as a reflection on open questions and community efforts,.
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Tracking in napari

Posted by , on 1 June 2023

In this blog post we are exploring cell tracking in napari. Two important processes in normal tissue development and disease are cell migration and proliferation. To gain a better understanding on these processes, tracking in time-lapse datasets is needed. By measuring track properties, like velocity and the total travelled distance, spatio-temporal relationships can be studied.
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#GliaMorph - a tool to analyse glial cell morphology in 3D

Posted by , on 17 May 2022

Contents What is #GliaMorph? What can you do and analyse with #GliaMorph? Links to manuscripts and data Contributions and Feedback Thanks to all contributors and people providing feedback References What is GliaMorph? GliaMorph is a toolkit implemented as Fiji Macros to allow modular application to process and analyse Müller glia morphology in the retina. During
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