After a first rough alignment (see here), it makes sense to start a second run only using a region of the stack containing the object of interest in all images. By this, the number of detected features will automatically increase even if the standard preset settings are used. Use the rectangle tool (upper left) to […]
alignment
Aligning an image stack in TrackEM2
This a very brief, compact introduction on how to align image stacks in TrakEM2. 1.open Fiji (download: https://imagej.net/Fiji/Downloads) : choose File in the sidebar –>Import –> Image Sequence 2. Choose the folder with all your images (mac) or open the folder and click on the first image (PC) and select the open button below. 3. the following […]