Partial Differential Equations (PDEs)-based morphology offers a wide range of continuous operators to address various image processing problems. Most of these operators are formulated as Hamilton–Jacobi equations or curve evolution level set and morphological flows. In our previous works, we have proposed a simple method to solve PDEs on point clouds using the framework of PdEs (Partial difference Equations) on graphs. In this paper, we propose to apply a large class of morphological-based operators on graphs for processing raw 3D point clouds and extend their applications for the processing of colored point clouds of geo-informatics 3D data. Through illustrations, we show that this simple framework can be used in the resolution of many applications for geo-informatics purposes.