Re-occurs among biii.info tags (visualisation, rendering, viewer, classification, ...)
In this session we will use a 3D multichannel reconstruction of zebrafish larva to explore the visualization capabilities of Matlab. We will start from extracting and inspecting single slices and will continue with combining multiple channels, finally generating a surface rendering for visual colocalization analysis.During the process we will review methods for manipulating multidimensional arrays, including resizing, reshaping and conditional selection.
In this session, we will implement a simple ImageJ macro to segment and analyze the blood vessel network of a subcutaneous tumor. The analysis is fully performed in 3D, and possible strategies to extract statistics of the network geometry and interactively visualize the results are also discussed and implemented.
Imaris, Visualization, spots segmentation, surfaces segmentation, colocalization, spots tracking, Batch, plotting graphs with Vantage.
Lecture Slides
