Broadcasting Automata and Patterns on Z^2

The Broadcasting Automata model draws inspiration from a variety of sources such as Ad-Hoc radio networks, cellular automata, neighbourhood se- quences and nature, employing many of the same pattern forming methods that can be seen in the superposition of waves and resonance. Algorithms for broad- casting automata model are in the same vain as those encountered in distributed algorithms using a simple notion of waves, messages passed from automata to au- tomata throughout the topology, to construct computations. The waves generated by activating processes in a digital environment can be used for designing a vari- ety of wave algorithms. In this chapter we aim to study the geometrical shapes of informational waves on integer grid generated in broadcasting automata model as well as their potential use for metric approximation in a discrete space. An explo- ration of the ability to vary the broadcasting radius of each node leads to results of categorisations of digital discs, their form, composition, encodings and gener- ation. Results pertaining to the nodal patterns generated by arbitrary transmission radii on the plane are explored with a connection to broadcasting sequences and ap- proximation of discrete metrics of which results are given for the approximation of astroids, a previously unachievable concave metric, through a novel application of the aggregation of waves via a number of explored functions

Streaming Tree Transducers

Theory of tree transducers provides a foundation for understanding expressiveness and complexity of analysis problems for specification languages for transforming hierarchically structured data such as XML documents. We introduce streaming tree transducers as an analyzable, executable, and expressive model for transforming unranked ordered trees in a single pass. Given a linear encoding of the input tree, the transducer makes a single left-to-right pass through the input, and computes the output in linear time using a finite-state control, a visibly pushdown stack, and a finite number of variables that store output chunks that can be combined using the operations of string-concatenation and tree-insertion. We prove that the expressiveness of the model coincides with transductions definable using monadic second-order logic (MSO). Existing models of tree transducers either cannot implement all MSO-definable transformations, or require regular look ahead that prohibits single-pass implementation. We show a variety of analysis problems such as type-checking and checking functional equivalence are solvable for our model.Comment: 40 page

A framework for space-efficient string kernels

String kernels are typically used to compare genome-scale sequences whose length makes alignment impractical, yet their computation is based on data structures that are either space-inefficient, or incur large slowdowns. We show that a number of exact string kernels, like the $k$-mer kernel, the substrings kernels, a number of length-weighted kernels, the minimal absent words kernel, and kernels with Markovian corrections, can all be computed in $O(nd)$ time and in $o(n)$ bits of space in addition to the input, using just a $\mathtt{rangeDistinct}$ data structure on the Burrows-Wheeler transform of the input strings, which takes $O(d)$ time per element in its output. The same bounds hold for a number of measures of compositional complexity based on multiple value of $k$, like the $k$-mer profile and the $k$-th order empirical entropy, and for calibrating the value of $k$ using the data

k-Spectra of weakly-c-Balanced Words

A word $u$ is a scattered factor of $w$ if $u$ can be obtained from $w$ by deleting some of its letters. That is, there exist the (potentially empty) words $u_1,u_2,..., u_n$, and $v_0,v_1,..,v_n$ such that $u = u_1u_2...u_n$ and $w = v_0u_1v_1u_2v_2...u_nv_n$. We consider the set of length-$k$ scattered factors of a given word w, called here $k$-spectrum and denoted \ScatFact_k(w). We prove a series of properties of the sets \ScatFact_k(w) for binary strictly balanced and, respectively, $c$-balanced words $w$, i.e., words over a two-letter alphabet where the number of occurrences of each letter is the same, or, respectively, one letter has $c$-more occurrences than the other. In particular, we consider the question which cardinalities n= |\ScatFact_k(w)| are obtainable, for a positive integer $k$, when $w$ is either a strictly balanced binary word of length $2k$, or a $c$-balanced binary word of length $2k-c$. We also consider the problem of reconstructing words from their $k$-spectra

Hopf Algebras of m-permutations, (m+1)-ary trees, and m-parking functions

The m-Tamari lattice of F. Bergeron is an analogue of the clasical Tamari order defined on objects counted by Fuss-Catalan numbers, such as m-Dyck paths or (m+1)-ary trees. On another hand, the Tamari order is related to the product in the Loday-Ronco Hopf algebra of planar binary trees. We introduce new combinatorial Hopf algebras based on (m+1)-ary trees, whose structure is described by the m-Tamari lattices. In the same way as planar binary trees can be interpreted as sylvester classes of permutations, we obtain (m+1)-ary trees as sylvester classes of what we call m-permutations. These objects are no longer in bijection with decreasing (m+1)-ary trees, and a finer congruence, called metasylvester, allows us to build Hopf algebras based on these decreasing trees. At the opposite, a coarser congruence, called hyposylvester, leads to Hopf algebras of graded dimensions (m+1)^{n-1}, generalizing noncommutative symmetric functions and quasi-symmetric functions in a natural way. Finally, the algebras of packed words and parking functions also admit such m-analogues, and we present their subalgebras and quotients induced by the various congruences.Comment: 51 page

Brick polytopes, lattice quotients, and Hopf algebras

This paper is motivated by the interplay between the Tamari lattice, J.-L. Loday's realization of the associahedron, and J.-L. Loday and M. Ronco's Hopf algebra on binary trees. We show that these constructions extend in the world of acyclic $k$-triangulations, which were already considered as the vertices of V. Pilaud and F. Santos' brick polytopes. We describe combinatorially a natural surjection from the permutations to the acyclic $k$-triangulations. We show that the fibers of this surjection are the classes of the congruence $\equiv^k$ on $\mathfrak{S}_n$ defined as the transitive closure of the rewriting rule $U ac V_1 b_1 \cdots V_k b_k W \equiv^k U ca V_1 b_1 \cdots V_k b_k W$ for letters $a < b_1, \dots, b_k < c$ and words $U, V_1, \dots, V_k, W$ on $[n]$. We then show that the increasing flip order on $k$-triangulations is the lattice quotient of the weak order by this congruence. Moreover, we use this surjection to define a Hopf subalgebra of C. Malvenuto and C. Reutenauer's Hopf algebra on permutations, indexed by acyclic $k$-triangulations, and to describe the product and coproduct in this algebra and its dual in term of combinatorial operations on acyclic $k$-triangulations. Finally, we extend our results in three directions, describing a Cambrian, a tuple, and a Schr\"oder version of these constructions.Comment: 59 pages, 32 figure