Registration of histological images using stitching and registration plugins in ImageJ/FIJI via PyImageJ.
env.yml and PyImageJ and PyTorch if use CoMIR.
Registering images of different imaging modalities can be difficult. One can convert the images into a common intermediate modality (pseudo modality) using methods such as CoMIR.
To do this for histological images, patch extraction is often needed due to the big image size. Images are tiled into patches, converted into pseudo modality, stitched using Grid/Collection plugin in ImageJ/FIJI, and then registered. pseudo_modality.ipynb
Once the images are converted into the common intermediate modality, conventional monomodal image registration such as SIFT feature matching can work well.
Monomdoal image registraion using SIFT landmark Correspondences in ImageJ/FIJI. ij_sift_registration.ipynb
