Search results for "Palindrome"
showing 10 items of 13 documents
Burrows-Wheeler transform and palindromic richness
2009
AbstractThe investigation of the extremal case of the Burrows–Wheeler transform leads to study the words w over an ordered alphabet A={a1,a2,…,ak}, with a1<a2<⋯<ak, such that bwt(w) is of the form aknkak−1nk−1⋯a2n2a1n1, for some non-negative integers n1,n2,…,nk. A characterization of these words in the case |A|=2 has been given in [Sabrina Mantaci, Antonio Restivo, Marinella Sciortino, Burrows-Wheeler transform and Sturmian words, Information Processing Letters 86 (2003) 241–246], where it is proved that they correspond to the powers of conjugates of standard words. The case |A|=3 has been settled in [Jamie Simpson, Simon J. Puglisi, Words with simple Burrows-Wheeler transforms, Electronic …
CRISPR sequences are sometimes erroneously translated and can contaminate public databases with spurious proteins containing spaced repeats
2020
© The Author(s) 2020.
Balancing and clustering of words in the Burrows–Wheeler transform
2011
AbstractCompression algorithms based on Burrows–Wheeler transform (BWT) take advantage of the fact that the word output of BWT shows a local similarity and then turns out to be highly compressible. The aim of the present paper is to study such “clustering effect” by using notions and methods from Combinatorics on Words.The notion of balance of a word plays a central role in our investigation. Empirical observations suggest that balance is actually the combinatorial property of input word that ensure optimal BWT compression. Moreover, it is reasonable to assume that the more balanced the input word is, the more local similarity we have after BWT (and therefore the better the compression is).…
A subquadratic algorithm for minimum palindromic factorization
2014
We give an $\mathcal{O}(n \log n)$-time, $\mathcal{O}(n)$-space algorithm for factoring a string into the minimum number of palindromic substrings. That is, given a string $S [1..n]$, in $\mathcal{O}(n \log n)$ time our algorithm returns the minimum number of palindromes $S_1,\ldots, S_\ell$ such that $S = S_1 \cdots S_\ell$. We also show that the time complexity is $\mathcal{O}(n)$ on average and $\Omega(n\log n)$ in the worst case. The last result is based on a characterization of the palindromic structure of Zimin words.
Enumeration and Structure of Trapezoidal Words
2013
Trapezoidal words are words having at most $n+1$ distinct factors of length $n$ for every $n\ge 0$. They therefore encompass finite Sturmian words. We give combinatorial characterizations of trapezoidal words and exhibit a formula for their enumeration. We then separate trapezoidal words into two disjoint classes: open and closed. A trapezoidal word is closed if it has a factor that occurs only as a prefix and as a suffix; otherwise it is open. We investigate open and closed trapezoidal words, in relation with their special factors. We prove that Sturmian palindromes are closed trapezoidal words and that a closed trapezoidal word is a Sturmian palindrome if and only if its longest repeated …
A Classification of Trapezoidal Words
2011
Trapezoidal words are finite words having at most n+1 distinct factors of length n, for every n>=0. They encompass finite Sturmian words. We distinguish trapezoidal words into two disjoint subsets: open and closed trapezoidal words. A trapezoidal word is closed if its longest repeated prefix has exactly two occurrences in the word, the second one being a suffix of the word. Otherwise it is open. We show that open trapezoidal words are all primitive and that closed trapezoidal words are all Sturmian. We then show that trapezoidal palindromes are closed (and therefore Sturmian). This allows us to characterize the special factors of Sturmian palindromes. We end with several open problems.
On the least number of palindromes contained in an infinite word
2013
We investigate the least number of palindromic factors in an infinite word. We first consider general alphabets, and give answers to this problem for periodic and non-periodic words, closed or not under reversal of factors. We then investigate the same problem when the alphabet has size two.
On the Structure of Bispecial Sturmian Words
2013
A balanced word is one in which any two factors of the same length contain the same number of each letter of the alphabet up to one. Finite binary balanced words are called Sturmian words. A Sturmian word is bispecial if it can be extended to the left and to the right with both letters remaining a Sturmian word. There is a deep relation between bispecial Sturmian words and Christoffel words, that are the digital approximations of Euclidean segments in the plane. In 1997, J. Berstel and A. de Luca proved that \emph{palindromic} bispecial Sturmian words are precisely the maximal internal factors of \emph{primitive} Christoffel words. We extend this result by showing that bispecial Sturmian wo…
Kvantu skaitļošanas konstrukcijas
2011
Elektroniskā versija nesatur pielikumus