Image Analysis for Biologists
Organizer: University of Cambridge
Host institution: University of Cambridge Bioinformatics Training
Start: Monday, 24 June 2019 @ 08:30
End: Wednesday, 26 June 2019 @ 16:00
Venue: Craik-Marshall Building
Country: United Kingdom
Postcode: CB2 3AR
Scientific topic: Data visualisation, Data mining, Biological imaging, BioinformaticsTarget audience:
- Researchers who are applying or planning to apply image analysis in their research
- Graduate students
- Postdocs and Staff members from the University of Cambridge
- Institutions and other external Institutions or individuals
This course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines.
On day 1 we will introduce principles of image processing and analysis, giving an overview of commonly used algorithms through a series of talks and practicals based on Fiji, an extensible open source software package.
On day 2, we will describe the open Icy platform developed at the Institut Pasteur. Icy is a next-generation, user-friendly software offering powerful acquisition, visualisation, annotation and analysis algorithms for 5D bioimaging data, together with unique automation/scripting capabilities (notably via its graphical programming interface) and tight integration with existing software (e.g. ImageJ, Matlab, Micro-Manager).
On day 3, we will cover time series processing and cell tracking using TrackMate and advanced image segmentation using Ilastik. Additionally, in the afternoon we will run a study design and data clinic (sign up will be required) for participants that wish to discuss their experiments.
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
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