Course: Introduction to Image Analysis for Plant Phenotyping

Previously we demonstrated how to manually outline and select objects and image features in Fiji. This process can often be automated using a simple technique called thresholding. This video demonstrates …

When we are trying to track an object, one way we can do this is by following the shape of the object between frames. To do this, we need a …

No doubt you will have encountered digital images on countless occasions, probably also taken and used digital images in your work or elsewhere, and possibly even done some post-processing of …

Thanks for taking the course! We hope it was helpful. Other courses in the DataCampp collection you may be interested in include: Machine Learning for image data Intro to robotics …

When we are using methods from image analysis, or most other computational techniques, we must make assumptions about the kinds of images the methods will work on. No image analysis …

A continuation of our discussion of the use of snakes or active contours in model-based image segmentation. This video looks in more detail at the snakes algorithm, in particular introducing …

How might image motion detection be useful in plant phenotyping? This video gives some possible applications including: Growth measurements Capture of discrete events e.g. seed germination Image stabilisation

Often rather than tracking individual pixels, we wish to track specific objects in the video frame, such as a leaf or a cell nuclei. This requires a method for object …

Edge detection is used to find the outline of objects. In this practical you can try this yourself using Fiji, and also see how edge detection is often used with …

This practical gives you an opportunity to try out image thresholding on both colour and grayscale images, as described in the preceding videos. All the instructions are in the attached …

If rather than detecting new motion or objects entering the image frame we are interested in how existing objects are moving, we can calculate something called optic flow. Optic flows …

Before we can detect motion in video, we need a way to extract individual frames and look at the pixel data within them. We can do this using code, but …

What kinds of data do we mean when we say ‘beyond 2D’? One obvious example is video data. Here, we give an overview of things to consider when collecting video …

A continuation of our previous video on feature-based image analysis methods. Here we consider how Sobel filtering is used to estimate the magnitude and direction of potential edges in images, …

If, rather than regions in our image we are looking for point or edge features, we might need to use feature-based methods rather than segmentation. In this video we look …