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We study the complexity of computation in finitely generated free left, right and two-sided adequate semigroups and monoids. We present polynomial time (quadratic in the RAM model of computation) algorithms to solve the word problem and…

Embeddings of word structures into matrix semigroups provide a natural bridge between combinatorics on words and linear algebra. However, low-dimensional matrix semigroups impose strong structural restrictions on possible embeddings.…

We construct a family of independent sets for finite, atomic, and graded lattices, extending the well-known cryptomorphism between geometric lattices and matroids. This construction leads to an embedding theorem into geometric lattices that…

Let $n\geq 3$ and $r_n$ be a $3$-polytopal graph such that for every $3\leq i\leq n$, $r_n$ has at least one vertex of degree $i$. We find the minimal vertex count for $r_n$. We then describe an algorithm to construct the graphs $r_n$. A…

For sufficiently nice families of semigroups and monoids, the structure theorem for sets of length states that the length set of any sufficiently large element is an arithmetic sequence with some values omitted near the ends. In this paper,…

Combinatorics of biopolymer structures, especially enumeration of various RNA secondary structures and protein contact maps, is of significant interest for communities of both combinatorics and computational biology. However, most of the…

Every semigroup which is a finite disjoint union of copies of the free mono- genic semigroup (natural numbers under addition) has soluble word prob- lem and soluble membership problem. Efficient algorithms are given for both problems.

We prove identities on compound matrices in extended tropical semirings. Such identities include analogues to properties of conjugate matrices, powers of matrices and~$\adj(A)\det(A)^{ -1}$, all of which have implications on the eigenvalues…

In the last few years there has been a growing interest towards methods for statistical inference and learning based on computational geometry and, notably, tropical geometry, that is, the study of algebraic varieties over the min-plus…

To enumerate 3-manifold triangulations with a given property, one typically begins with a set of potential face pairing graphs (also known as dual 1-skeletons), and then attempts to flesh each graph out into full triangulations using an…

We present a necessary and sufficient condition for a 3 by 3 matrix to be unitarily equivalent to a symmetric matrix with complex entries, and an algorithm whereby an arbitrary 3 by 3 matrix can be tested. This test generalizes to a…

We consider an algorithm by Tijdeman and Zamboni constructing a word of a given length that has a given set of periods, and the richest possible alphabet. We show that this algorithm can be easily stated and its correctness briefly proved…

In [2], while studying a relevant class of polyominoes that tile the plane by translation, i.e., double square polyominoes, the authors found that their boundary words, encoded by the Freeman chain coding on a four letters alphabet, have…

The notion of a two-dimensional word arises naturally in the study of combinatorics on words, while the iterative construction of pedal triangles results in a rich dynamical system in the study of geometry. At first, these two classes of…

For each positive $n$, let $u_n = v_n$ denote the identity obtained from the Adjan identity $(xy) (yx) (xy) (xy) (yx) = (xy) (yx) (yx) (xy) (yx)$ by substituting $(xy) \rightarrow (x_1 x_2 \dots x_n)$ and $(yx) \rightarrow (x_n \dots x_2…

We study the subgroup structure of the semigroup of finitary tropical matrices under multiplication. We show that every maximal subgroup is isomorphic to the full linear automorphism group of a related tropical polytope, and that each of…

Recently designed biomolecular approaches to build single chain polypeptide polyhedra as molecular origami nanostructures have risen high interest in various double traces of the underlying graphs of these polyhedra. Double traces are walks…

In this article we overview those aspects of the theory of affine semigroups and their algebras that have been relevant for our own research, and pose several open problems. Answers to these problems would contribute substantially to the…

We suggest a new algorithm for finding a canonical representative of a given braid, and also for the harder problem of finding a $\sigma_1$-consistent representative. We conjecture that the algorithm is quadratic-time. We present numerical…

Tandem duplication in DNA is the process of inserting a copy of a segment of DNA adjacent to the original position. Motivated by applications that store data in living organisms, Jain {\em et al.} (2016) proposed the study of codes that…