Combinatorial Pattern Matching

The papers contained in this volumewere presented at the 11thAnnual Sym- sium on CombinatorialPattern Matching, held June 21-23, 2000 at the Univ- sit edeMontr eal. They were selected from 44 abstracts submitted in response to the call for papers. In addition, there were invited lectures by Andrei Broder (AltaVista), Fernando Pereira (AT&T Research Labs), and Ian H. Witten (U- versity of Waikato). The symposium was preceded by a two-day summer school set up to - tract and train young researchers. The lecturers at the school were Greg Butler, ClementLam,andGusGrahne:BLAST!Howdoyousearchsequencedatabases?, DavidBryant:Phylogeny,Ra aeleGiancarlo: Algorithmicaspectsof speech rec- nition, Nadia El-Mabrouk: Genome rearrangement,LaxmiParida: Flexib- pattern discovery, and Ian H. Witten: Adaptive text mining: inferring structure from sequences. Combinatorial Pattern Matching (CPM) addresses issues of searching and matching strings and more complicated patterns such as trees, regular expr- sions graphs, point sets, and arrays. The goal is to derive non-trivial combi- torial properties of such structures and to exploit these properties in order to achieve superior performance for the corresponding computational problems. Over recent years a steady ?ow of high-quality research on this subject has changed a sparse set of isolated results into a fully-?edged area of algorithmics.

Includes supplementary material: sn.pub/extras

Inhalt
Invited Lectures.- Identifying and Filtering Near-Duplicate Documents.- Machine Learning for Efficient Natural-Language Processing.- Browsing around a Digital Library: Today and Tomorrow.- Summer School Lectures.- Algorithmic Aspects of Speech Recognition: A Synopsis.- Some Results on Flexible-Pattern Discovery.- Contributed Papers.- Explaining and Controlling Ambiguity in Dynamic Programming.- A Dynamic Edit Distance Table.- Parametric Multiple Sequence Alignment and Phylogeny Construction.- Tsukuba BB: A Branch and Bound Algorithm for Local Multiple Sequence Alignment.- A Polynomial Time Approximation Scheme for the Closest Substring Problem.- Approximation Algorithms for Hamming Clustering Problems.- Approximating the Maximum Isomorphic Agreement Subtree Is Hard.- A Faster and Unifying Algorithm for Comparing Trees.- Incomplete Directed Perfect Phylogeny.- The Longest Common Subsequence Problem for Arc-Annotated Sequences.- BoyerMoore String Matching over Ziv-Lempel Compressed Text.- A BoyerMoore Type Algorithm for Compressed Pattern Matching.- Approximate String Matching over ZivLempel Compressed Text.- Improving Static Compression Schemes by Alphabet Extension.- Genome Rearrangement by Reversals and Insertions/Deletions of Contiguous Segments.- A Lower Bound for the Breakpoint Phylogeny Problem.- Structural Properties and Tractability Results for Linear Synteny.- Shift Error Detection in Standardized Exams.- An Upper Bound for Number of Contacts in the HP-Model on the Face-Centered-Cubic Lattice (FCC).- The Combinatorial Partitioning Method.- Compact Suffix Array.- Linear Bidirectional On-Line Construction of Affix Trees.- Using Suffix Trees for Gapped Motif Discovery.- Indexing Text with Approximate q-Grams.- Simple Optimal String Matching Algorithm.-Exact and Efficient Computation of the Expected Number of Missing and Common Words in Random Texts.- Periods and Quasiperiods Characterization.- Finding Maximal Quasiperiodicities in Strings.- On the Complexity of Determining the Period of a String.