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Trellises are crucial graphical representations of codes. While conventional trellises are well understood, the general theory of (tail-biting) trellises is still under development. Iterative decoding concretely motivates such theory. In…
Tree convex sets refer to a collection of sets such that each set in the collection is a subtree of a tree whose nodes are the elements of these sets. They extend the concept of row convex sets each of which is an interval over a total…
Phylogenetic networks are a generalization of evolutionary or phylogenetic trees that are commonly used to represent the evolution of species which cross with one another. A special type of phylogenetic network is an {\em $X$-cactus}, which…
We study the class structure of finite-alphabet Markov chains with arbitrary memory length. To capture the structural constraints induced by prohibited transitions, we introduce the skeleton of a higher-order transition kernel, defined as a…
This note presents an encoding and a decoding algorithms for a forest of (labelled) rooted uniform hypertrees and hypercycles in linear time, by using as few as $n - 2$ integers in the range $[1,n]$. It is a simple extension of the…
In deep neural networks, better results can often be obtained by increasing the complexity of previously developed basic models. However, it is unclear whether there is a way to boost performance by decreasing the complexity of such models.…
Every encoding has priori information if the encoding represents any semantic information of the unverse or object. Encoding means mapping from the unverse to the string or strings of digits. The semantic here is used in the model-theoretic…
In this paper, we propose a linear complexity encoding method for arbitrary LDPC codes. We start from a simple graph-based encoding method ``label-and-decide.'' We prove that the ``label-and-decide'' method is applicable to Tanner graphs…
While a considerable amount of semantic parsing approaches have employed RNN architectures for code generation tasks, there have been only few attempts to investigate the applicability of Transformers for this task. Including hierarchical…
Given a nonempty set $\mathcal{L}$ of linear orders, we say that the linear order $L$ is $\mathcal{L}$-convex embeddable into the linear order $L'$ if it is possible to partition $L$ into convex sets indexed by some element of $\mathcal{L}$…
We study the problem of learning a node-labeled tree given independent traces from an appropriately defined deletion channel. This problem, tree trace reconstruction, generalizes string trace reconstruction, which corresponds to the tree…
You might know that the name "tree transducers" refers to various kinds of automata that compute functions on ranked trees, i.e. terms over a first-order signature. But have you ever wondered about how to remember what a macro tree…
Trees or rooted trees have been generously studied in the literature. A forest is a set of trees or rooted trees. Here we give recurrence relations between the number of some kind of rooted forest with $k$ roots and that with $k+1$ roots on…
We present a new model of computation, described in terms of monoidal categories. It conforms the Church-Turing Thesis, and captures the same computable functions as the standard models. It provides a succinct categorical interface to most…
As part of work to connect phylogenetics with machine learning, there has been considerable recent interest in vector encodings of phylogenetic trees. We present a simple new "ordered leaf attachment" (OLA) method for uniquely encoding a…
Quasi-trees generalize trees in that the unique "path" between two nodes may be infinite and have any countable order type. They are used to define the rank-width of a countable graph in such a way that it is equal to the least upper-bound…
An order-theoretic forest is a countable partial order such that the set of elements larger than any element is linearly ordered. It is an order-theoretic tree if any two elements have an upper-bound. The order type of a branch can be any…
Succinct data structures give space-efficient representations of large amounts of data without sacrificing performance. They rely one cleverly designed data representations and algorithms. We present here the formalization in Coq/SSReflect…
Trees are partial orders in which every element has a linearly ordered set of predecessors. Here we initiate the exploration of the structural theory of trees with the study of different notions of \emph{branching in trees} and of…
Labeled infinite trees provide combinatorial interpretations for many integer sequences generated by nested recurrence relations. Typically, such sequences are monotone increasing. Several of these sequences also have straightforward…