Huygens Professional (SVI) is 3D software used to deconvolve 3D datasets to greatly increase S/N. It also has powerful analysis capabilities including particle analysis and colocalization.

We offer free use of HuygensPro for BIF microscope users.

Here is a short discussion about colocalization.

Original SIM Z-stack (L); Deconvolved (R). The organism is Nannochloropsis
Huygens Professional Particle Analysis
Huygens Professinal Colocalization