Search results for "Computer Science - Formal Languages and Automata Theory"
showing 10 items of 69 documents
Alignment-free sequence comparison using absent words
2018
Sequence comparison is a prerequisite to virtually all comparative genomic analyses. It is often realised by sequence alignment techniques, which are computationally expensive. This has led to increased research into alignment-free techniques, which are based on measures referring to the composition of sequences in terms of their constituent patterns. These measures, such as $q$-gram distance, are usually computed in time linear with respect to the length of the sequences. In this paper, we focus on the complementary idea: how two sequences can be efficiently compared based on information that does not occur in the sequences. A word is an {\em absent word} of some sequence if it does not oc…
On the computational power of affine automata
2017
We investigate the computational power of affine automata (AfAs) introduced in [4]. In particular, we present a simpler proof for how to change the cutpoint for any affine language and a method how to reduce error in bounded error case. Moreover, we address to the question of [4] by showing that any affine language can be recognized by an AfA with certain limitation on the entries of affine states and transition matrices. Lastly, we present the first languages shown to be not recognized by AfAs with bounded-error.
Automata and differentiable words
2011
We exhibit the construction of a deterministic automaton that, given k > 0, recognizes the (regular) language of k-differentiable words. Our approach follows a scheme of Crochemore et al. based on minimal forbidden words. We extend this construction to the case of C\infinity-words, i.e., words differentiable arbitrary many times. We thus obtain an infinite automaton for representing the set of C\infinity-words. We derive a classification of C\infinity-words induced by the structure of the automaton. Then, we introduce a new framework for dealing with \infinity-words, based on a three letter alphabet. This allows us to define a compacted version of the automaton, that we use to prove that ev…
Novel Results on the Number of Runs of the Burrows-Wheeler-Transform
2021
The Burrows-Wheeler-Transform (BWT), a reversible string transformation, is one of the fundamental components of many current data structures in string processing. It is central in data compression, as well as in efficient query algorithms for sequence data, such as webpages, genomic and other biological sequences, or indeed any textual data. The BWT lends itself well to compression because its number of equal-letter-runs (usually referred to as $r$) is often considerably lower than that of the original string; in particular, it is well suited for strings with many repeated factors. In fact, much attention has been paid to the $r$ parameter as measure of repetitiveness, especially to evalua…
On the Number of Closed Factors in a Word
2015
A closed word (a.k.a. periodic-like word or complete first return) is a word whose longest border does not have internal occurrences, or, equivalently, whose longest repeated prefix is not right special. We investigate the structure of closed factors of words. We show that a word of length $n$ contains at least $n+1$ distinct closed factors, and characterize those words having exactly $n+1$ closed factors. Furthermore, we show that a word of length $n$ can contain $\Theta(n^{2})$ many distinct closed factors.
Alternating, private alternating, and quantum alternating realtime automata
2014
We present new results on realtime alternating, private alternating, and quantum alternating automaton models. Firstly, we show that the emptiness problem for alternating one-counter automata on unary alphabets is undecidable. Then, we present two equivalent definitions of realtime private alternating finite automata (PAFAs). We show that the emptiness problem is undecidable for PAFAs. Furthermore, PAFAs can recognize some nonregular unary languages, including the unary squares language, which seems to be difficult even for some classical counter automata with two-way input. Regarding quantum finite automata (QFAs), we show that the emptiness problem is undecidable both for universal QFAs o…
Probabilistic verification of all languages
2018
We present three protocols for verifying all languages: (i) For any unary (binary) language, there is a log-space (linear-space) interactive proof system (IPS); (ii) for any language, there is a constant-space weak-IPS (the non-members may not be rejected with high probability); and, (iii) for any language, there is a constant-space IPS with two provers where the verifier reads the input once. Additionally, we show that uncountably many binary (unary) languages can be verified in constant space and in linear (quadratic) expected time.
Inkdots as advice for finite automata
2015
We examine inkdots placed on the input string as a way of providing advice to finite automata, and establish the relations between this model and the previously studied models of advised finite automata. The existence of an infinite hierarchy of classes of languages that can be recognized with the help of increasing numbers of inkdots as advice is shown. The effects of different forms of advice on the succinctness of the advised machines are examined. We also study randomly placed inkdots as advice to probabilistic finite automata, and demonstrate the superiority of this model over its deterministic version. Even very slowly growing amounts of space can become a resource of meaningful use i…
Uncountable realtime probabilistic classes
2017
We investigate the minimum cases for realtime probabilistic machines that can define uncountably many languages with bounded error. We show that logarithmic space is enough for realtime PTMs on unary languages. On binary case, we follow the same result for double logarithmic space, which is tight. When replacing the worktape with some limited memories, we can follow uncountable results on unary languages for two counters.
Zero-Error Affine, Unitary, and Probabilistic OBDDs
2017
We introduce the affine OBDD model and show that zero-error affine OBDDs can be exponentially narrower than bounded-error unitary and probabilistic OBDDs on certain problems. Moreover, we show that Las Vegas unitary and probabilistic OBDDs can be quadratically narrower than deterministic OBDDs. We also obtain the same results by considering the automata versions of these models.