Course: Introduction to Image Analysis for Plant Phenotyping

The final part of our video series on image based reconstruction. In this video we cover volumetric stereo or reconstruction from silhouettes, and discuss some potential problems in making 3D …

A continuation of our discussion: What is image analysis? In this second part, we look at how placing constraints on the subject or camera during the aquisition process can aid …

In this video we take a closer look at the numerical values pixels are able to take in RGB, 8-bit grayscale and 16-bit grayscale images.

What are the main of 3D model representations of objects such as plants? We look at the strengths and weaknesses of three main data types: Volumes or voxel-based representations Point …

In a similar way to how we can extend 2D images to be 3D or volumetric, therefore containing more information about 3D structure, we can also increase the information we …

Why might we want a 3D model representation of plant rather than a volumetric stack of 2D images? This video outlines some of the benefits, as well as some of …

In many cases, the background of a video will change over time, for example as the sun moves throughout the day. In this video we look at how background images …

A demonstration on different ways to view volumetric data using Fiji. Includes: Orthogonal views 3D viewer plugin Adjusting voxel depth

How do we detect movement in video? Common ways include frame-wise comparision, and the use of background subtraction, as discussed in this video.

Cameras can capture a much greater range of wavelengths of light than the human eye can detect. Images with data across the full range of wavelengths of light are known …

Volumetric images are stacks of images with a Z dimension as well as an XY image plane. Here we look at the types of data that can be stored and …

As well as reading out pixel values from an image, you often need to change or set pixel values. This video gives a demonstration of how to alter pixel values …

Software such as Fiji offers several ways to view and manipulate 3D volumetric image data. This practical lets you try out a few, as well as performing some analysis on …

A demonstration of how to access image pixel values using Python in the script editor in Fiji

Now we know a bit more Python code, we can return to the ‘Making a digital image’ practical from last week and discuss the code in a bit more detail. …