Background: The performance of alignment programs is traditionally tested on sets of protein sequences, of which a reference alignment is known. Conclusions drawn from such protei...
Background: High quality multiple alignments are crucial in the transfer of annotation from one genome to another. Multiple alignment methods strive to achieve ever increasing lev...
This article presents a model for DNA sequence alignment. In our model, a finite state automaton writes two-dimensional maps of nucleotide sequences. An evolutionary method for se...
We develop a novel and general approach to estimating the accuracy of protein multiple sequence alignments without knowledge of a reference alignment, and use our approach to addre...
Dan F. DeBlasio, Travis J. Wheeler, John D. Kececi...
We study the problem of similarity detection by sequence alignment with gaps, using a recently established theoretical framework based on the morphology of alignment paths. Alignm...