Exporting image stacks from TrakEM2

Exporting aligned image stacks from TrackEM2 ist an important feature, allowing it to make use of semi-automatic segmentation tools available in others Open Source Software packages (such als MIB, Drishti, Ilastik…) as well as commercial packages (Amira, Imaris, VGstudio…).The export ist easily done after the alignment (see here), either as export of the complete canvas (everything visible in the […]

Organize your project in TrakEM2

After your images have been imported to TrakEM2 and aligned (see here), the project needs to be organized in order to start the reconstruction. 1.Basically there a two columns: template and Project objects in the project window. You have to build up a template from where you can drop the specific templates to the project […]