We have developed open-source software in C++ for computing with polyhedra, lattices, and related algebraic structures. We will shortly explain its design. Then we will explain how it was used for computing the dual structure of the $W(H_4)$ polytope. Then we will consider another application to finding the fundamental domain of cocompact subgroups $G$ of $\mathrm{SL}_n(\mathbb{R})$. The approach defines a cone associated with the group and a point $x\in \mathbb{R}^n$. It is a generalization of Venkov reduction theory for $\mathrm{GL}_n(\mathbb{Z})$. We recall the Poincaré Polyhedron Theorem which underlies these constructions. We give an iterative algorithm that allows computing a fundamental domain. The algorithm is based on linear programming, the Shortest Group Element (SGE) problem and combinatorics. We apply it to the Witte cocompact subgroup of $\mathrm{SL}_3(\mathbb{R})$ defined by Witte for the cubic ring of discriminant $49$.