There are two ways to extract the edge coordinates of an region of interest (ROI): 1) The long wayBefore starting to draw the region of interest (rectangle tool) and exporting the images (export –> make flat image), we start the macro recorder (FIJI Side bar: Plugins –> Macro –> Record), which allows to read out […]
TrakEM2
Import of large Amira label files to TrakEM2
Some projects might need in a later project step a realignment of the image data (after segmentations have been done already) to correct for so far overlooked smaller alignment errors. It is possible to recalculate the Amira labels to the new image transformations in TrakEM2 (assumed you have done the initial image alignment in TrakEM2), […]