Hi Ali,

I guess different images are not supposed to be aligned - and these images are in fact different, and if all background is cut out and just a single dot (cell?) is left, then the error message says it all: "The number 1 of correspondences found is not enough to align the images.": Any rotation is undefined, and I would not regard the animation obtained from FIJI/plugin as a solution.

Without test data I cannot try, but i think you would rather need ImageTransformation together with ComponentMeasurements[#,"Centroid"]& - as a first guess. Or maybe ImageFeatureTrack does the trick.

Regards -- Henrik