FIJI ImageJ Segmentation of Big Image Data with Labkit

>> YOUR LINK HERE: ___ http://youtube.com/watch?v=S4PpvzpNisk

Learn how to use FIJI (ImageJ) to label and segment large images using the plugin called LABKIT. This tool combines the power of ImgLib2 and BigDataViewer with fast random forest based pixel classification algorithm. Labkit features a user-friendly interface allowing for rapid scribble labeling, training, live segmentation, and interactive curation of the segmented image. It can be applied to single-, multi-channel and color images as well as to time lapse movies in 2D or 3D. • Key moments: • 00:00 Introduction • 00:05 Installing Labkit in Fiji • 00:45 Using Labkit on a z stack • 01:08 Opening an active image with Labkit • 01:21 Image navigation, contrast and color modification on LabKit interface • 02:19 Training classifiers by image labeling • 03:25 Segmentation options • 03:59 Live segmentation • 04:20 Curating segmented image • 04:53 Segmented outputs • 05:32 Creating a label from segmentation • 06:38 using Labkit on a time lapse RGB image • 06:54 Navigating a time series • 07:15 Adding labels • 07:30 Annotation, training, segmentation and outputs • 08:16 Curation of segmented image • Plugin citation: • Arzt, M., Deschamps, J., Schmied, C., Pietzsch, T., Schmidt, D., Tomancak, P., Haase, R., Jug, F. (2022). LABKIT: Labeling and Segmentation Toolkit for Big Image Data. Frontiers in Computer Science, 4. doi:10.3389/fcomp.2022.777728 • Online documentation: https://imagej.net/plugins/labkit/ • SUBSCRIBE to have first access to new video tutorials: / @johanna.m.dela-cruz

#############################

New on site