Mission

Microscopy and image analysis are so strongly intertwined that it is impossible to talk about one without the other. We aim to form an international network among young scientists in which we can discuss our specific imaging and analysis issues in an informal, peer- based environment. We offer problem- based learning on flexible, on-demand topics (watch parties of online lectures, roundtable discussions and troubleshooting sessions), as well as events with invited experts. Participation in the YMIA network is supported by GerBI, but does not require a GerBI membership.

Join the YMIA Watchparty on 04.06.2024 at 4pm to dive into Spot Detection, Tracking and Trackmate: Sign up for the Watchparty Event Series!

Upcoming Events

For our next event series, we delve into Bioimage Analysis! Across 14 weeks, we’ve curated a watchparty series featuring Robert Haase’s recorded lectures on Bioimage Analysis (https://www.youtube.com/playlist?list=PL5ESQNfM5lc7SAMstEu082ivW4BDMvd0U), covering fundamental principles, filtering, segmentation, feature extraction, macro programming in Fiji, Tracking with Trackmate, machine learning with Fiji and Ilastik, and image registration. The series includes “software playground” sessions to apply learned concepts to microscopy data, though not every week. For additional events, reach out and share your interest! Get the links and stay informed by signing up to the event series.
Date Time Event Topic
04.06.2024 4pm – 5:30 CEST Watchparty 7a Spot detection and Tracking
7b Trackmate
06.06.2024 4pm – 5:30 CEST Software Playground

Want to try tracking with Trackmate using your own data? Join this event for hands-on experience, with Rike available for troubleshooting and guidance in various settings.

11.06.2024 4pm – 5:30 CEST Watchparty 8a Machine Learning for Pixel and Object Classification
18.06.2024 4pm – 5:30 CEST Watchparty 8b Machine learning for pixel classification in Fiji
8c Machine learning for pixel and object classification in Ilastik
20.06.2024 4pm – 5:30 CEST Software Playground Do you want to try pixel classification with your own data? Join this event to test Labkit in Fiji or Ilastik. Rike will be there to help out if something doesn’t work, or to give some advice in different settings.
25.06.2024 4pm – 5:30 CEST Watchparty 12a Volumetric Image Processing
12b 3D Image Visualisation in Fiji
12c 3D image Processing in Fiji
02.07.2024 4pm – 5:30 CEST Watchparty 13a Multi-dimensional Image Processing
13b Multi-dimensional Image Processing in Fiji
09.07.2024 4pm – 5:30 CEST Watchparty 14a Image Registration
14b Image Registration in Fiji
16.07.2024 4pm – 5:30 CEST Watchparty 14c Applied Bioimage analysis Lecture 2020 – A summary
18.07.2024 4pm – 5:30 CEST Software Playground Let’s come together and combine our knowledge for image processing to tackle our own image analysis needs. Bring your data and get it on with the coding! Rike will be there to help out if something doesn’t work, or to give some advice for different analysis approaches.
23.07.2024 4pm – 5:30 CEST Watchparty GPU Accelerated Image Processing with CLIJ2 – Webinar
25.07.2024 4pm – 5:30 CEST Software Playground Are you curious how CLIJ2 could be used in your own image analysis pipelines? Let’s try to implement this tool for our own data! Rike will be there to help out if something doesn’t work, or to give some advice for different analysis approaches.

Activities

Watch parties

Watch-Parties are a communal way to follow prerecorded lecture series in the YMIA. This way you can update your knowledge in varying fields of microscopy and image analysis applications in an interactive way together with your peers and discuss questions afterwards.

Sign up for the Watchparty Series

Software Playground

Let’s code together! Experience interactive coding sessions where brainstorming and troubleshooting take center stage. Uncover solutions, overcome obstacles, and elevate your coding skills by interacting with the community.

Sign up for the Software Playground Sessions

Roundtable Discussion

Roundtable discussions are an opportunity to discuss issues, to connect, as well as to introduce yourself and your research.

Sign up for the Roundtable Sessions

Expert Session

Engage in Expert sessions featuring topics chosen by the YMIA community, presented by field-leading experts for insightful discussions and invaluable insights.

Sign up for the Expert Sessions

Resources

The resource database is a collection of knowledge that is deemed to be especially useful to young researchers. We focus on already existing other databases, as well as literature and youtube videos that already exist on other platforms. We are also working on establishing a database on how to connect to other existing local networks – to core facilities or self-help services – to promote finding on-site support whenever possible.

Who we are

Core team

Team Members

  • Sona Michlikova – PostDoc (Translational Radiooncology) at the National Center for Radiation Research in Oncology (OncoRay) in Dresden and Helmholz-Zentrum Dresden – Rossendorf
  • Friederike Kessel – PostDoc at the Center for Regenerative Therapies Dresden, Neural Development and Regeneration
  • Annika Haak – PhD Student (Biochemistry) at the RUBION, Ruhr-University Bochum
  • Elena Nicolay, Research Assistant (M.Sc.) at UFZ Helmholtz Centre for Environmental Research Leipzig, Mechanistic Toxicology

With the help of a quick survey we assessed who was interested in the YMIA: Roughly 50% of the participants of this survey were PhD students, PostDocs and Master Students constitute the remaining half. Members of the team come from a variety of scientific backgrounds, including Biology, Physics, Engineering, Medicine and Bioinformatics. Their interests are equally distributed between both microscopy and image analysis.

Join the YMIA

Everyone is welcome to join, no matter where they are located or what imaging or analysis modality they are using. In order to join, please send an email to team-ymia@gerbi-gmb.de or sign up for the mailing list when you register for one of our events. If you are interested, you can also become an active member of the GerBI society, but this is not mandatory to join the online activities of the YMIA.

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