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FocalPlane features... Data Analysis for volume EM

Posted by , on 16 November 2021

In case you missed ‘FocalPlane features…’ this month, here is the recording of the webinar given by Anna Kreshuk (EMBL Heidelberg), Dagmar Kainmueller (MDC Berlin) and Jan Funke (Janelia Research Campus) on Monday 8 November 2021.
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Asymmetric cell divisions in 3 dimension stem cell colonies

Posted by , on 27 September 2021

When looking at the development of a multicellular organism, for example a human, the first striking feature is the progressive increase in cell numbers due to successive divisions, from one single tiny cell 80 mm in diameter to a 3.5 kg ball of organised cells forming a new-born baby. The way cells divide, in particular
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Collaborative bio-image analysis script editing with git

Posted by , on 4 September 2021

TL;DR: I’m a computer scientist who often collaborates with biologists on bio-image analysis scripts. We are using more and more git, a version control program, for working on code collaboratively. When using git, we speak about repositories, commits and pushing to the origin. We also make forks, send pull-requests and merge code. This blog post
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From EUBIAS to NEUBIAS Academy: from trainee to trainer, how to fall in love with a community!

Posted by , on 20 July 2021

During my university time at physics, I specialised in biophysics and started to approach advanced microscopy, but my idea of measurement had always been connected with other instruments’ readouts, not exclusively images. Once obtained my MSc, I started to work in an imaging facility at IFOM (Milan), as a microscopist, becoming later also in charge
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Podcast about Bio-Image Analysis, Microscopy, and Science in General

Posted by , on 7 July 2021

Why a podcast? At my home university, I was formally trained as a chemist. That meant I spent significant amounts of my time in front of the lab bench. I loved lab work, and an important part of the lab’s culture was the radio. There was no successful chemistry without good radio in the background.
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A biologist’s checklist for calcium imaging and optogenetic analysis

Posted by , on 12 April 2021

Technological advancement constantly makes these methods more accessible, however, there are a number of understated complexities involved with these types of imaging-based experiments
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Going virtual: the successful experience of the I2K2020 conference

Posted by , on 1 March 2021

The ‘ImageJ User and Developer Conference’ was conceived as a conference about ImageJ-based bioimage analysis software, covering the core software as well as its plugins and applications. These conferences were held approximately every two years from 2006 through 2015. In 2018, the conference changed its name to ‘From Images to Knowledge with ImageJ & Friends
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Postdoc in Bioimaging and 3D bioprinting

Posted by , on 20 January 2021

A 2-year postdoc position is available in the Microenvironmental Ecology and Symbiosis group(see https://twitter.com/microsensing) at the Department of Biology, University of Copenhagen Application deadline is February 1, earliest start can be April 1 or later in 2021.Apply via this link: https://employment.ku.dk/faculty/?show=153173 I am looking for talented scientists with a PhD (or in the final phase
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A career path to bioimage analysis

Posted by , on 9 December 2020

I am currently working in Heidelberg, Germany, finishing my PhD thesis between the medical university of Heidelberg and the microscopy company ACQUIFER. My research project is dedicated to the development of user-oriented software solutions (Fiji plugins, KNIME workflows…) to facilitate the handling and analysis of large microscopy datasets of 2D images. The project is motivated
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Bioimage Analysis in FIJI - Resource List

Posted by , on 14 September 2020

If you are on this site, you might be aware of some of the open source image processing and analysis tools are available to you. The toolbox in this space is rapidly expanding. But that doesn’t always mean it’s easy to navigate – it can actually be quite daunting. Luckily the bio-imaging community is friendly
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