"Dogmatic" P Systems

In this work we propose a variant of P systems based on the Central Dogma of Molecular Biology which establishes the transformation of DNA strands into protein products by applying different string transformation such as transductions and transcriptions. We introduce a new kind of worm object rules to carry out transducion operations. Finally, we establish the universality of the proposed model by simulating Iterated finite state sequential transducers (IFTs)

Computation in Finitary Stochastic and Quantum Processes

We introduce stochastic and quantum finite-state transducers as computation-theoretic models of classical stochastic and quantum finitary processes. Formal process languages, representing the distribution over a process's behaviors, are recognized and generated by suitable specializations. We characterize and compare deterministic and nondeterministic versions, summarizing their relative computational power in a hierarchy of finitary process languages. Quantum finite-state transducers and generators are a first step toward a computation-theoretic analysis of individual, repeatedly measured quantum dynamical systems. They are explored via several physical systems, including an iterated beam splitter, an atom in a magnetic field, and atoms in an ion trap--a special case of which implements the Deutsch quantum algorithm. We show that these systems' behaviors, and so their information processing capacity, depends sensitively on the measurement protocol.Comment: 25 pages, 16 figures, 1 table; http://cse.ucdavis.edu/~cmg; numerous corrections and update

Three hierarchies of transducers

Composition of top-down tree transducers yields a proper hierarchy of transductions and of output languages. The same is true for ETOL systems (viewed as transducers) and for two-way generalized sequential machines

Tree transducers, L systems, and two-way machines

A relationship between parallel rewriting systems and two-way machines is investigated. Restrictions on the “copying power” of these devices endow them with rich structuring and give insight into the issues of determinism, parallelism, and copying. Among the parallel rewriting systems considered are the top-down tree transducer; the generalized syntax-directed translation scheme and the ETOL system, and among the two-way machines are the tree-walking automaton, the two-way finite-state transducer, and (generalizations of) the one-way checking stack automaton. The. relationship of these devices to macro grammars is also considered. An effort is made .to provide a systematic survey of a number of existing results

Regular Combinators for String Transformations

We focus on (partial) functions that map input strings to a monoid such as the set of integers with addition and the set of output strings with concatenation. The notion of regularity for such functions has been defined using two-way finite-state transducers, (one-way) cost register automata, and MSO-definable graph transformations. In this paper, we give an algebraic and machine-independent characterization of this class analogous to the definition of regular languages by regular expressions. When the monoid is commutative, we prove that every regular function can be constructed from constant functions using the combinators of choice, split sum, and iterated sum, that are analogs of union, concatenation, and Kleene-*, respectively, but enforce unique (or unambiguous) parsing. Our main result is for the general case of non-commutative monoids, which is of particular interest for capturing regular string-to-string transformations for document processing. We prove that the following additional combinators suffice for constructing all regular functions: (1) the left-additive versions of split sum and iterated sum, which allow transformations such as string reversal; (2) sum of functions, which allows transformations such as copying of strings; and (3) function composition, or alternatively, a new concept of chained sum, which allows output values from adjacent blocks to mix.Comment: This is the full version, with omitted proofs and constructions, of the conference paper currently in submissio

Iterated uniform finite-state transducers

A deterministic iterated uniform finite-state transducer (for short, iufst) operates the same length-preserving transduction on several left-to-right sweeps. The first sweep occurs on the input string, while any other sweep processes the output of the previous one. We focus on constant sweep bounded iufsts. We study their descriptional power vs. deterministic finite automata, and the state cost of implementing language operations. Then, we focus on non-constant sweep bounded iufsts, showing a nonregular language hierarchy depending on sweep complexity