Crynodeb
The data explosion problem continues to escalate requiring novel and ingenious solutions. Pattern inference focusing on repetitive structures in data is a vigorous field of endeavor aimed at shrinking volumes of data by means of concise descriptions. The Burrows–Wheeler transformation computes a permutation of a string of letters over an alphabet, and is wellsuited to compressionrelated applications due to its invertability and data clustering properties. For space efficiency the input to the transform can be preprocessed into Lyndon factors. Rather than this classic deterministic approach for letter based strings, we consider scenarios with uncertainty regarding the data: a position in an indeterminate or degenerate string is a set of letters. We first define indeterminate Lyndon words and establish their associated unique string factorization; then we introduce the novel degenerate Burrows–Wheeler transformation which may apply the indeterminate Lyndon factorization. A core computation in Burrows–Wheeler type transforms is the linear sorting of all conjugates of the input string—we achieve this in the degenerate case with lexextension ordering. Like the original forms, indeterminate Lyndon factorization and the degenerate transform and its inverse can all be computed in linear time and space with respect to total input size of degenerate strings. Regular molecular biological strings yield a wealth of applications of big data—an important motivation for generalizing to degenerate strings is their extensive use in expressing polymorphism in DNA sequences.
Iaith wreiddiol  Saesneg 

Tudalennau (oi)  209218 
Nifer y tudalennau  10 
Cyfnodolyn  Mathematics in Computer Science 
Cyfrol  11 
Rhif cyhoeddi  2 
Dyddiad arlein cynnar  02 Chwef 2017 
Dynodwyr Gwrthrych Digidol (DOIs)  
Statws  Cyhoeddwyd  01 Meh 2017 
Cyhoeddwyd yn allanol  Ie 
Ôl bys
Gweld gwybodaeth am bynciau ymchwil 'Indeterminate String Factorizations and Degenerate Text Transformations'. Gyda’i gilydd, maen nhw’n ffurfio ôl bys unigryw.Proffiliau

Jacqueline Daykin
 Cyfadran Busnes a’r Gwyddorau Ffisegol, Cyfrifiadureg  Honorary Research Fellow
Unigolyn: Arall